Unknown,Transcriptomics,Genomics,Proteomics

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Global genomic profiling of p53-regulated genes


ABSTRACT: p53 is a critical tumor suppressor and works as a stress-induced transcription factor to induce target genes mediating apoptosis, cell cycle arrest and senescence or other responses. To gain new insights into p53 biology, we used high-throughput sequencing to analyze global p53 transcriptional networks in primary mouse embryo fibroblasts in response to DNA damage. ChIP-sequencing reveals 4785 p53-bound sites in the genome located near 3193 genes involved in diverse biological processes. RNA-sequencing analysis shows that only a subset of p53-bound genes is transcriptionally regulated, yielding a list of 432 p53-bound and regulated genes. Furthermore, we define a list of 1269 basal-p53 regulated genes, of which 253 are p53-bound and basal-p53 regulated. ChIP-seq was performed to determine the genome-wide p53 binding sites in doxorubicin-treated primary MEFs. RNA-seq was used to define differentially expressed genes in response to DNA damage in wild-type and p53-/- MEFs, and basal p53 regulated genes by deriving differentially expressed genes between untreated wild-type and p53-/- MEFs.

ORGANISM(S): Mus musculus

SUBMITTER: Stephano Spano Mello 

PROVIDER: E-GEOD-46240 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Global genomic profiling reveals an extensive p53-regulated autophagy program contributing to key p53 responses.

Kenzelmann Broz Daniela D   Spano Mello Stephano S   Bieging Kathryn T KT   Jiang Dadi D   Dusek Rachel L RL   Brady Colleen A CA   Sidow Arend A   Attardi Laura D LD  

Genes & development 20130501 9


The mechanisms by which the p53 tumor suppressor acts remain incompletely understood. To gain new insights into p53 biology, we used high-throughput sequencing to analyze global p53 transcriptional networks in primary mouse embryo fibroblasts in response to DNA damage. Chromatin immunoprecipitation sequencing reveals 4785 p53-bound sites in the genome located near 3193 genes involved in diverse biological processes. RNA sequencing analysis shows that only a subset of p53-bound genes is transcrip  ...[more]

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