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Homo sapiens

ABSTRACT: Genome-wide maps of chromatin accessibility of histone deacetylase inhibition in triple-negative breast cancer

PROVIDER: PRJNA358732 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5130180_1.fastq.gz	Fastqsanger.gz
	SRR5130180_2.fastq.gz	Fastqsanger.gz
	SRR5130181_1.fastq.gz	Fastqsanger.gz
	SRR5130181_2.fastq.gz	Fastqsanger.gz
	SRR5130182_1.fastq.gz	Fastqsanger.gz

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Homo sapiens

Project description:Genome-wide DNA methylation maps of histone deacetylase inhibition in triple-negative breast cancer

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Genome-wide maps of chromatin accessibility of histone deacetylase inhibition in triple-negative breast cancer

Project description:Analysis of chromatin accessibility changes after prolonged exposure of triple-negative breast cancer cell lines to low doses of Panobinostat (LBH589), a pan-histone deacetylase inhibitor.

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Project description:Gene expression profiling of histone deacetylase inhibition in triple-negative breast cancer

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Genome-wide DNA methylation maps of histone deacetylase inhibition in triple-negative breast cancer

Project description:Analysis of DNA methylation changes after prolonged exposure of triple-negative breast cancer cell lines to low doses of Panobinostat (LBH589), a pan-histone deacetylase inhibitor.

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Gene expression profiling of histone deacetylase inhibition in triple-negative breast cancer

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Discrete Adaptive Responses to MEK Inhibitor In Subpopulations of Triple-Negative Breast Cancer [FAIRE-seq]

Project description:We report the chromatin accessibility of epithelial and mesenchymal subpopulations isolated from a triple-negative breast cancer cell line.

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Visualization and Sequencing of Accessible Chromatin Reveals Cell Cycle and Post-HDAC inhibitor Treatment Dynamics

Project description:Chromatin accessibility in the nucleus is a predictor of gene expression, cell division and cell type specificity. NicE-viewSeq (Nicking Enzyme assisted viewing and Sequencing) allows accessible chromatin visualization and sequencing with lower mitochondrial DNA and duplicated sequences compared to ATACsee. Using NicE-viewSeq we interrogated cell cycle G1, S and G2M specific accessible chromatin in mammalian cells. Despite DNA replication and subsequent condensation of chromatin to chromosome, chromatin accessibility remained subtly altered and generally preserved. Genome-wide alteration of accessibility for TSS and enhancer gradually decreased as the cell progressed from G1 to G2M, with distinctive differential accessibility near consensus transcription factors sites. Inhibition of histone deacetylase promoted accessible chromatin of the gene body, correlating with apoptotic gene expression. In addition, reduced chromatin accessibility for MYC oncogene pathway correlated with gene down regulation. Surprisingly, repetitive RNA expression remained unaltered following histone acetylation mediated increased accessibility. Therefore, we suggest that subtle changes in chromatin accessibility is a prerequisite during cell cycle and histone deacetylase inhibitor mediated therapeutics.

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Quantitative Phosphoproteome Analysis of Rocaglamide A in Triple-negative Breast Cancer cells

Project description:An TMT-based quantitative phosphoproteome analysis using liquid chromatography–coupled tandem mass spectrometry was performed to acquire proteome-wide expression data on Triple-negative Breast Cancer (TNBC) cells treated with time-course Rocaglamide A.

2025-01-04 | PXD048247 | JPOST Repository

Quantitative Proteome Analysis of Rocaglamide A in Triple-negative Breast Cancer cells

Project description:An iTRQA-based quantitative proteome analysis using liquid chromatography–coupled tandem mass spectrometry was performed to acquire proteome-wide expression data on Triple-negative Breast Cancer (TNBC) cells treated with Rocaglamide A for 24 hours.

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