Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Promoter G-quadruplex folding precedes transcription and is controlled by chromatin

ABSTRACT: Promoter G-quadruplex folding precedes transcription and is controlled by chromatin

PROVIDER: PRJNA681342 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13161600.fastq.gz	Fastqsanger.gz
	SRR13161700.fastq.gz	Fastqsanger.gz
	SRR13161800.fastq.gz	Fastqsanger.gz
	SRR13161601.fastq.gz	Fastqsanger.gz
	SRR13161701.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 324

Similar Datasets

Promoter G-quadruplex folding precedes transcription and is controlled by chromatin

Project description:Four stranded DNA G-quadruplex (G4) structures are common features of the human genome that are primarily found in active promoters associated with elevated transcription. Here, we explore the relationship between the folding of G4s in promoters, transcription and chromatin state. Transcriptional inhibition by DRB or by triptolide reveals that promoter G4 formation, as assessed G4 ChIP-seq, is not reliant on transcriptional activity. Establishing a link between G4 formation and chromatin accessibility, we demonstrate that chromatin compaction leads to loss of promoter G4s accompanied by a corresponding loss of RNA polymerase II (Pol II). Furthermore, pre-treatment of cells with a G4-stabilising ligand can mitigate Pol II loss at promoters induced by chromatin compaction. Overall, our findings show that G4 formation is fostered in accessible chromatin and does not require active transcription. Furthermore, our findings suggest that G4s have a role to recruit Pol II to promote transcription.

2021-03-31 | GSE162299 | GEO

Promoter G-quadruplex folding precedes transcription and is controlled by chromatin.

Project description:BackgroundFour-stranded G-quadruplexes (G4s) are DNA secondary structures in the human genome that are primarily found in active promoters associated with elevated transcription. Here, we explore the relationship between the folding of promoter G4s, transcription and chromatin state.ResultsTranscriptional inhibition by DRB or by triptolide reveals that promoter G4 formation, as assessed by G4 ChIP-seq, does not depend on transcriptional activity. We then show that chromatin compaction can lead to loss of promoter G4s and is accompanied by a corresponding loss of RNA polymerase II (Pol II), thus establishing a link between G4 formation and chromatin accessibility. Furthermore, pre-treatment of cells with a G4-stabilising ligand mitigates the loss of Pol II at promoters induced by chromatin compaction.ConclusionsOverall, our findings show that G4 folding is coupled to the establishment of accessible chromatin and does not require active transcription.

| S-EPMC8103603 | biostudies-literature

Genomic G-Quadruplex folding and unfolding following global DNA demethylation

Project description:We demonstrate that CpG methylation status may impact the genome-wide folding and stabilization of G-Quadruplex in human cancer cells.

2025-02-07 | GSE196282 | GEO

Stress promotes RNA G-quadruplex folding in human cells

Project description:Guanine (G)-rich nucleic acids can fold into G-quadruplex (G4) structures under permissive conditions. Although many RNAs contain sequences that fold into RNA G4s (rG4s) in vitro, their folding and functions in vivo are not well understood. Here, we showed that the folding of putative rG4s in human cells into rG4 structures was dynamically induced by stress. By using high-throughput dimethylsulfate probing, we identified hundreds of endogenous stress-induced rG4s. Our results demonstrated that stress-induced rG4s were enriched in mRNA 3′-untranslated regions and enhanced mRNA stability. Furthermore, stress-induced rG4 folding was readily reversible upon stress removal. In summary, our study revealed the dynamic regulation of rG4 folding in living human cells and suggests suggested that widespread rG4 motifs may have a global regulatory impact on mRNA stability and cellular stress response.

2022-12-15 | GSE200706 | GEO

Stress promotes RNA G-quadruplex folding in human cells

Project description:Stress promotes RNA G-quadruplex folding in human cells

| PRJNA826109 | ENA

Genomic G-Quadruplex folding and unfolding following global DNA demethylation

Project description:Genomic G-Quadruplex folding and unfolding following global DNA demethylation

| PRJNA804153 | ENA

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (DMS-Seq)

Project description:Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (DMS-Seq)

| PRJNA907004 | ENA

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (ChIP-Seq)

Project description:Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (ChIP-Seq)