Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

R-loop associated G-quadruplexes reinforce CTCF interactions

ABSTRACT: R-loop associated G-quadruplexes reinforce CTCF interactions

PROVIDER: PRJNA858467 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR20168000_1.fastq.gz	Fastqsanger.gz
	SRR20168000_2.fastq.gz	Fastqsanger.gz
	SRR20168001_1.fastq.gz	Fastqsanger.gz
	SRR20168001_2.fastq.gz	Fastqsanger.gz
	SRR20168002_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 132

Similar Datasets

R-loop associated G-quadruplexes reinforce CTCF interactions

Project description:We report that three-stranded R-loop structures facilitate CTCF binding genome-wide through the formation of G-quadruplex (G4) structures. Genome-wide assays of CTCF and R-loop formation under various treatment conditions reveal that R-loop removal and G4 stabilization can both alter CTCF occupancy, and these changes are associated with alterations in gene expression and chromatin organization.

2023-06-26 | GSE208145 | GEO

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [MicroC]

Project description:CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [MicroC]

| PRJNA1212539 | ENA

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [iCLIP2]

Project description:CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [iCLIP2]

| PRJNA1212524 | ENA

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [RNA-seq]

Project description:CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [RNA-seq]

| PRJNA1212521 | ENA

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [ChIP-seq]

Project description:CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [ChIP-seq]

| PRJNA1212515 | ENA

STAG2 promotes CTCF-anchored loop extrusion and cis-promoter and -enhancer interactions

Project description:STAG2 promotes CTCF-anchored loop extrusion and cis-promoter and -enhancer interactions

| PRJNA550416 | ENA

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [iCLIP2]

Project description:CCCTC-binding factor (CTCF) is essential for chromatin organization, but its role in dynamically shaping chromatin loops during cellular differentiation is not fully understood. We previously demonstrated that CTCF interacts with endogenous RNAs, and deletion of its ZF1 RNA-binding region disrupts chromatin loops in mouse embryonic stem cells (ESCs). Using an ESC-to-neural progenitor cell (NPC) differentiation model, we show that the ZF1 RNA-binding region of CTCF is crucial for maintaining cell-type specific chromatin loops. Expression of CTCF-∆ZF1 leads to dysregulation of genes within these disrupted loops, particularly those involved in neuronal development and function. We identified NPC-specific, CTCF-interacting RNAs and chose Podxl and Grb10 for further study. We found that CRISPR-Cas9-mediated truncation of Podxl and Grb10 disrupts chromatin loops in cis, similar to the disruption seen in the NPC-∆ZF1 mutant. Our study underscores the importance of CTCF-ZF1 RNA interactions in preserving cell-specific genome structure and cellular identity.

2025-03-19 | GSE287380 | GEO

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization [MicroC]

2025-03-19 | GSE287376 | GEO

DNA G-quadruplexes contribute to CTCF and cohesin recruitment

Project description:DNA G-quadruplexes contribute to CTCF and cohesin recruitment

| PRJNA723750 | ENA