Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ATAC-Seq]

ABSTRACT: The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ATAC-Seq]

PROVIDER: PRJNA1109719 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28976237_1.fastq.gz	Fastqsanger.gz
	SRR28976237_2.fastq.gz	Fastqsanger.gz
	SRR28976238_1.fastq.gz	Fastqsanger.gz
	SRR28976238_2.fastq.gz	Fastqsanger.gz
	SRR28976239_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [iMARGI]

Project description:The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [iMARGI]

| PRJNA1109720 | ENA

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIRP]

Project description:The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIRP]

| PRJNA1109722 | ENA

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIP-seq]

Project description:The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIP-seq]

| PRJNA1109825 | ENA

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [iMARGI]

Project description:RNA constitutes a large fraction of chromatin. Spatial distribution and functional relevance of most of RNA interactions within the chromatin remain unknown. We established a landscape analysis of RNA-chromatin interactions in human acute myeloid leukemia (AML). In total more than 50 million interactions were captured in an AML cell line. Protein-coding mRNAs and long non-coding RNAs (lncRNAs) exhibited a substantial number of interactions with chromatin in cis suggesting transcriptional activity. In contrast, small nucleolar RNAs (snoRNAs) and small nuclear RNAs (snRNAs) associated with chromatin predominantly in trans suggesting chromatin specific functions. Of note, snoRNA-chromatin interaction is associated with chromatin modification and is independent of the classical snoRNA-RNP complexes. Two non-canonical C/D box snoRNAs, namely SNORD118 and SNORD3A, displayed high frequency of trans-association with chromatin. The transcription of SNORD118 and SNORD3A was increased upon leukemia transformation and enriched in leukemia stem cells, but decreased during myeloid differentiation. Suppression of SNORD118 and SNORD3A impaired leukemia cell proliferation and colony forming capacity in AML cell lines and in primary AML blast samples. Notably, this effect was leukemia specific with minimal impact on healthy CD34+ hematopoietic stem and progenitor cells (HSPCs). These findings highlight the functional importance of chromatin-associated RNAs overall and in particular of SNORD118 and SNORD3A in maintaining leukemia propagation.

2024-05-14 | GSE267083 | GEO

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIRP]

2024-05-14 | GSE267081 | GEO

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ATAC-Seq]

2024-05-14 | GSE267080 | GEO

The landscape of RNA-chromatin interaction reveals small non coding RNAs as essential mediators of leukemia maintenance [ChIP-seq]

2024-05-14 | GSE267136 | GEO

Genome-wide screening and identification of long noncoding RNAs and their interaction with protein coding RNAs in bladder urothelial cell carcinoma

Project description:To understand the role of long non-coding RNAs and interaction with coding RNAs in bladder urothelial cell carcinoma (BUCC), we performed genome-wide screening long non-coding RNAs and coding RNAs expression on primary BUCC tissues and normal tissues using long non-coding RNA array (Agilent plateform (GPL13825). By comparing these two groups, significantly differentially expressed lncRNAs and coding RNAs were identified. We further identifed a subset of long noncoding RNAs and their correlation with neighboring coding genes using bioinformatic tools. This analysis provides foundamental understaning of transcriptomic landscape changing during bladder carcinogenesis. 12 BUCC primary tumors and 3 normal tissues were used for long noncoding RNA array experiments which including long non-coding RNAs and coding RNAs. The differential expression of subset of long noncoding RNAs and their interaction with coding RNAs in BUCC compared with normal tissue will be identified with comtational analysis.

2013-12-31 | E-GEOD-51493 | biostudies-arrayexpress

Non-coding RNAs in the interaction between rice and Meloidogyne graminicola

Project description:Non-coding RNAs in the interaction between rice and Meloidogyne graminicola

| PRJNA657181 | ENA

Genome-wide screening and identification of long noncoding RNAs and their interaction with protein coding RNAs in bladder urothelial cell carcinoma

2013-12-31 | GSE51493 | GEO