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SRX514846: GSM1366695: TP53_Untreated_replicate_2; Homo sapiens; ChIP-Seq
1 ILLUMINA (Illumina Genome Analyzer II) run: 9.4M spots, 318.9M bases, 143.6Mb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Genome wide characterization reveals complex interplay between TP53 and TP63 in response to genotoxic stress [ChIP-Seq]
show Abstracthide Abstract
In response to genotoxic stress the TP53 tumour suppressor activates target gene expression to induce cell cycle arrest or apoptosis depending on the extent of DNA damage. These canonical activities can be repressed by TP63 in normal stratifying epithelia to maintain proliferative capacity or drive proliferation of squamous cell carcinomas, where TP63 is frequently overexpressed/amplified. Here we use ChIP-sequencing, integrated with microarray analysis, to define the genome wide interplay between TP53 and TP63 in response to genotoxic stress in normal cells. We reveal that TP53 and TP63 bind to overlapping, but distinct cistromes of sites through utilization of distinctive consensus motifs and that TP53 is constitutively bound to a number of sites. We demonstrate that cisplatin and adriamycin elicit distinct effects on TP53 and TP63 binding events, through which TP53 can induce or repress transcription of an extensive network of genes by direct binding and/or modulation of TP63 activity. Collectively, this results in a global TP53 dependent repression of cell cycle progression, mitosis and DNA damage repair concomitant with activation of anti-proliferative and pro-apoptotic canonical target genes. Further analyses reveals that in the absence of genotoxic stress TP63 plays an important role in maintaining expression of DNA repair genes, loss of which results in defective repair Overall design: Examination of p63 and p53 binding sites in neonatal foreskin keratinocytes in response to adriamycin or cisplatin treatment
Sample: TP53_Untreated_replicate_2
SAMN02725032 • SRS590923 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina Genome Analyzer II
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: p63 or p53 bound DNA was enriched for by chromatin immunoprecipitation .End repaired sequencing libraries were prepared from two independent biological replicatesand matched input control using NEBNext sample preparation kit (New England biolabs) according to manufacturers instructions. The resulting adapter ligated DNA was subjected to 16 cycles of adapter mediated pcr using Herculase II Fusion DNA Polymerase (Agilent). The resulting libraries were size fractionated in a 2% agarose gel and purified to obtain 2-400Bp fragments. Each library was validated using an agilent 2100 bioanalyser and sequenced on the Illumina GAII sequencer according to manufacturers instructions.
Experiment attributes:
GEO Accession: GSM1366695
Links:
External link:
Runs: 1 run, 9.4M spots, 318.9M bases, 143.6Mb
Run# of Spots# of BasesSizePublished
SRR12318479,379,974318.9M143.6Mb2014-04-14

ID:
714343

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