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Exploration of the genome-wide DNA binding of chicken p53 in LMH cells

ABSTRACT: Exploration of the genome-wide DNA binding of chicken p53 in LMH cells

PROVIDER: PRJNA824453 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18674482_1.fastq.gz	Fastqsanger.gz
	SRR18674482_2.fastq.gz	Fastqsanger.gz
	SRR18674483_1.fastq.gz	Fastqsanger.gz
	SRR18674483_2.fastq.gz	Fastqsanger.gz
	SRR18674484_1.fastq.gz	Fastqsanger.gz

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Exploration of the genome-wide DNA binding of chicken p53 in LMH cells

Project description:To investigate the genome-wide DNA binding of chicken p53, we overexpressed chicken p53 with a flag in LMH cells. We then performed genome-wide DNA binding analysis using data obtained from ChIP-seq of LMH cells.

2022-10-05 | GSE200405 | GEO

Exploration of the transcriptional regulation network of chicken p53 in LMH cells upon ILTV infection

Project description:To gain the in-depth insights into the transcriptional regulation network of chicken liver cancer cells, we sequenced the mRNA of LMH cells for further genome-wide gene expression analysis. To investigate the transcriptional regulation network of chicken p53, we created conditions different in p53 activity for LMH cell lines upon ILTV infection. We then performed gene expression profiling analysis using data obtained from RNA-seq of LMH cells.

2022-10-05 | GSE193188 | GEO

Exploration of the transcriptional regulation network of chicken p53 in LMH cells upon ILTV infection

Project description:Exploration of the transcriptional regulation network of chicken p53 in LMH cells upon ILTV infection

| PRJNA795332 | ENA

Genome-wide analysis of p53 binding protein

Project description:Tumor suppressor p53 regulates various role in the cell including cell cycle arrest, DNA repair and apoptosis. Current research achieved to investigate p53 target genes in human osteosarcoma cell line-SaOS2 cell. Examination of p53 binding protein by transfecting flag-tagged wild type p53 into SaOS2 cells.

2014-04-01 | E-GEOD-51268 | biostudies-arrayexpress

Genome-wide binding sites of transcription factor 21 in chicken preadipocytes

Project description:The object of this study is to find the genome-wide TCF21 binding sites and its downstream target genes in chicken adipogenesis

2024-07-01 | GSE179259 | GEO

Coupling p53 binding and nucleosome occupancy measurements at p53 binding sites

2010-08-09 | GSE22783 | GEO

Coupling p53 binding and nucleosome occupancy measurements at p53 binding sites

Project description:We were interested to explain why p53 binds some high affinity sites in contrast to other high affinity sites that are not bound by p53. p53 binding was measured using p53 ChIP-CHIP and in parallel nucleosome occupancy was measured on these same sites Comparison between p53 binding and nucleosome occupancy at p53 predicted binding sites ChIP-CHIP of p53 from MCF7EcoR under Basal conditions and MCF7EcoR treated with NCS (Activated) and Mononucleosomal extraction from MCF7sip53, MCF7EcoR under Basal conditions and MCF7EcoR treated with NCS (Activated) Expression analysis of MCF7sip53 and MCF7EcoR treated with NCS (Activated)

2010-08-09 | E-GEOD-22783 | biostudies-arrayexpress

Genome-wide mapping of p53-binding in 293T cells

Project description:Genome-wide mapping of p53-binding in 293T cells

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Effect of p53 knowkdown on genome-wide map of AR-DNA binding

Project description:We report that p53 knockdown changed AR-DNA binding across the genome. We found fewer AR-binding sites in the absence of p53. Examination of AR-DNA binding after p53 knockdown in LNCaP cells

2012-07-31 | E-GEOD-31294 | biostudies-arrayexpress

Cell Context Dependent p53 Genome-Wide Binding Patterns and Enrichment at Repeats

Project description:We mapped the genomic binding sites of the tumor suppressor protein p53 in the human colorectal cancer cell line HCT116 and report here that the binding patterns of endogenous wild type p53 differed significantly between the genomes of the cancer cell line HCT116 and the normal human IMR90 fibroblasts (GSE31558) under the same experimental conditions (6 hr treatment with 5-fluorouracil). p53 binding differences affect promoter regions, CpG islands and major families of human repeat elements such as LTR, LINE and SINE. While p53 genomic binding sites residing in repeats have been reported before, we show here that the fraction of the p53 genomic binding sites residing in different repeat families differs between the normal and cancer human cell lines. We confirm that the p53 genomic binding sites in HCT116 cells are excluded from CpG islands, an observation we made previously based on analysis of data reported by others. While the p53 ability to elicit stress-specific and cell-type-specific responses is well documented, how this specificity is established, at the level of binding to the genome and/or during post-binding events, represents an open question. Our data indicate that p53 binding to the human genome is cell line-specific and highly selective. The differences in the p53 genome-wide binding patterns between the cancer cell line HCT116 and the normal cell line IMR90, namely exclusion from CpG islands and enrichment at repeats in HCT116, likely reflect cancer-associated epigenetic changes in the chromatin. Identification of genomic p53 binding sites in HCT116 cells by ChIP-seq.

2014-11-21 | E-GEOD-58714 | biostudies-arrayexpress

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