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Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [ATAC-seq]

ABSTRACT: Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [ATAC-seq]

PROVIDER: PRJNA806966 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18021477_1.fastq.gz	Fastqsanger.gz
	SRR18021477_2.fastq.gz	Fastqsanger.gz
	SRR18021478_1.fastq.gz	Fastqsanger.gz
	SRR18021478_2.fastq.gz	Fastqsanger.gz
	SRR18021479_1.fastq.gz	Fastqsanger.gz

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Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [ATAC-seq]

Project description:NUDT5 was reported to generate ATP to support local chromatin remodeling and transcription of hormone-responsive genes. Our research has found that NUDT5 is also required for DNA damage repair by homologous recombination. To investigate how NUDT5 regulates HR, we depleted NUDT5 in U2OS cells by siRNA and compared the transcriptome profiling (RNA-seq) of NUDT5 depleted cells with control cells to investigate whether NUDT5 regulate HR by altering the expression of essential components of the HR machinery. The results suggest that NUDT5 does not regulate HR by altering the expression of essential components of the HR machinery. To investigate whether NUDT5 contributes to chromatin remodeling after DNA damage, we compared the chromatin accessibility profiling (ATAC-seq) in NUDT5 depleted U2OS cells and control cells, either before or after ionizing radiation. The results suggest that NUDT5 silencing blocked most DNA damage-induced changes in chromatin accessibility following radiation exposure and implies that NUDT5 may support the activity of remodeling ATPases during damage repair.

2023-02-14 | GSE196721 | GEO

Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells

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Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [RNA-seq]

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Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells

Project description:Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells

| PRJNA806962 | ENA

Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [RNA-seq]

Project description:Genome wide analsis of the chromatin accessibility and gene expression in control and NUDT5 depleted U2OS cells [RNA-seq]

| PRJNA806965 | ENA

Studying changes in chromatin accessibility in U2OS-GR cells by ATAC-seq directly after 4-hour glucocorticoid treatment and following a 24-hour hormone washout

Project description:We performed ATAC-seq in the U2OS-GR cell line. The cell line is derived from U2OS ATTC:HTB-96 and stably transfected with an expression construct for rat GR. Cells were treated with dexamethasone (100 nM) or vehicle (ethanol) for 4 hours and either harvested immediately or washed 2x with PBS and subsequently cultured in hormone-free medium for 24 hours before harvest.

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ATAC-seq in the U2OS-AR cell line comparing cells treated for 4 hours with 5 nM R1881 to vehicle (DMSO) control-treated cells

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Project description:In order to identify the open chromatin profiles in the U2OS cell, ATAC-seq technology was used to determine the accessible chromatin landscape in U2OS cell.

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Project description:Chromatin accessibility profiling analsis was performed in 22 human prostate cancer organoid, 6 Xenografts and 7 cell lines

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Chromatin accessibility analysis of primary GCTB samples

Project description:Analysis of chromatin accessibility in primary GCTB samples with ATAC-seq

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