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Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells

ABSTRACT: Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells

PROVIDER: PRJNA556429 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11727658_1.fastq.gz	Fastqsanger.gz
	SRR11727658_2.fastq.gz	Fastqsanger.gz
	SRR11727659_1.fastq.gz	Fastqsanger.gz
	SRR11727659_2.fastq.gz	Fastqsanger.gz
	SRR11727660_1.fastq.gz	Fastqsanger.gz

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Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (BLISS)

Project description:Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (BLISS)

| PRJNA556433 | ENA

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (ATAC-seq)

Project description:Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (ATAC-seq)

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Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells [BLISS human]

Project description:Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells [BLISS human]

| PRJNA630892 | ENA

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (RNA-seq)

Project description:Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (RNA-seq)

| PRJNA556431 | ENA

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells [BLISS human]

Project description:The number and position of breaks using BLISS-seq was measured in MCF-7 cells upon irradiation with 10 Gy and with or without the use of the antioxidant (N-acetylcysteine, NAC, 10mM).

2020-07-07 | GSE150016 | GEO

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (BLISS)

Project description:The depletion of HMGB1 reduces the deposition of histones on naked DNA (Celona et al, 2011). in primary MEFs and yeast. We verified that the downmodulation of HMGB1 decreases histone level also in a model of murine mesothelioma. HMGB1 was KD in Murine Mesothelioma AB22 cells by the expression of a shRNA. Nucleosome positioning and occupancy were tested by ATAC-seq. Since a reduced amount of nucleosomes increase the cell sensitivity to gamma irradiatio, we tested the number and position of breaks using BLISS-seq.

2020-07-07 | GSE134797 | GEO

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (RNA-seq)

2020-07-07 | GSE134795 | GEO

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells (ATAC-seq)

2020-07-07 | GSE134796 | GEO

Nucleosomes protect DNA from irradiation-induced double strand breaks in living cells

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-07-07 | GSE134798 | GEO

Strand-specific ChIP-seq at DNA breaks distinguishes single versus doubled stranded DNA binding and refutes single stranded nucleosomes

Project description:In a first step of DNA double-strand break (DSB) repair by homologous recombination, DNA ends are resected such that single-stranded DNA (ssDNA) overhangs are generated. ssDNA is specifically bound by RPA and other factors, which constitutes a ssDNA-compartment on damaged chromatin. The molecular organization of this ssDNA- as well as the adjacent dsDNA-compartment is crucial during DSB signaling and repair. However, data regarding the association of the most basic chromatin components – the nucleosomes – have been discrepant. Here, we use site-specific induction of DSBs and chromatin-immunoprecipitation followed by strand-specific sequencing to analyse in vivo binding of key DSB repair and signalling proteins to either the ssDNA- or dsDNA-compartment. In case of nucleosomes, we show that recently proposed ssDNA-nucleosomes are not a major, persistent species, but that nucleosomes eviction and DNA end resection are intrinsically coupled. These results support a model of separated dsDNA-nucleosome- and ssDNA-RPA-compartments during DSB signaling and repair.

2021-03-01 | GSE149807 | GEO

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