Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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

PROVIDER: PRJNA556431 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9824971_1.fastq.gz	Fastqsanger.gz
	SRR9824971_2.fastq.gz	Fastqsanger.gz
	SRR9824972_1.fastq.gz	Fastqsanger.gz
	SRR9824972_2.fastq.gz	Fastqsanger.gz
	SRR9824973_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

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

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

| PRJNA556429 | ENA

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)

| PRJNA556432 | ENA

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 [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

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data