Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [RNA-seq]

ABSTRACT: LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [RNA-seq]

PROVIDER: PRJNA839365 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19268109_1.fastq.gz	Fastqsanger.gz
	SRR19268109_2.fastq.gz	Fastqsanger.gz
	SRR19268110_1.fastq.gz	Fastqsanger.gz
	SRR19268110_2.fastq.gz	Fastqsanger.gz
	SRR19268111_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [RNA-seq]

Project description:LINE1s are abundant retroelements comprising 17% of human genome. Naturally, genomic LINE1s are tightly repressed by epigenetic mechanism; however, if relieved, they can be detrimental to genome stability by their transposition capability. So, a supervising mechanism that quickly re-represses the leaky LINE1s is demanded. Here we show that de-repressed LINE1s generate small RNAs, L1-siRNAs, which SETDB1 and AGO2 recognize, then move into searching for a transcript with sequence complementarity, and ultimately re-install a repression mechanism at LINE1 5’-untranslated region (5’UTR) by depositing trimethyl-H3K9 (H3K9me3). Immunoprecipitation (IP) results showed that SETDB1, AGO2, and L1-siRNA bound to each other and Chromatin-IP-seq and small-RNA-seq results demonstrated that they sat at the same locus within the 5’UTR. SETDB1, AGO2, and L1-siRNA all were necessary for LINE1 repression, particularly the evolutionary young and transposition-competent families such as L1HS/L1PA1 and L1PA2. KAP1, which frequently partners with SETDB1 for silencing local chromatin, was dispensible for the repression of young L1PAs. Our findings indicate that, as a surveillance mechanism, the L1-siRNA-triggered, SETDB1-AGO2-effected repair of epigenetic errors at the 5’UTR establishes a homeostatic re-repression mechanism on inadvertently de-repressed LINE1 copies over the genome.

2023-08-21 | GSE203287 | GEO

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [MBD-seq]

2023-08-21 | GSE203286 | GEO

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [ChIP-seq]

2023-08-21 | GSE203285 | GEO

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [small RNA-seq]

2023-08-21 | GSE203288 | GEO

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells

Project description:LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells

| PRJNA839357 | ENA

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [ChIP-seq]

Project description:LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [ChIP-seq]

| PRJNA839362 | ENA

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [MBD-seq]

Project description:LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [MBD-seq]

| PRJNA839361 | ENA

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [small RNA-seq]

Project description:LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells [small RNA-seq]

| PRJNA839364 | ENA

LINE1 TGS mechanism mediated by SETDB1-AGO2 complex in human somatic cells

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

2023-08-21 | GSE203289 | GEO

Expression data from leaf of Arabidopsis TGS mutants

Project description:Transcriptional gene silencing (TGS) in Arabidopsis is regulated by two distinct pathways, DNA methylation-dependent and –independent. ddm1 and mom1 mutants are defective in the DNA-dependent and –independent pathway, respectively. We used microarrays to detail the global changes in gene expression in the TGS mutants Keywords: TGS mutants

2007-08-29 | GSE5771 | 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