Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): synthetic construct Mus musculus Homo sapiens

PROVIDER: GSE237161 | GEO | 2024/10/03

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (RBNS)

Project description:RNA binding proteins can modulate RNA secondary structures, thus participating in post-transcriptional regulation. The DEAH-box helicase 36 (DHX36) has a remarkable ability to bind and unwind RNA G-quadruplex (rG4) and duplex. However, the transcriptome-wide RNA structure dynamic induced by DHX36 and how structure change subsequently influences RNA fate remain poorly understood. Here, we first identify the endogenous binding sites and specificity of DHX36 based on binding profiles. Next, we capture in vivo RNA structuromes to investigate the structure change of DHX36-bound mRNAs following DHX36 knockout. DHX36 induces structure remodeling on not only the localized binding sites but also the other sites across the entire mRNA especially in 3’UTR. DHX36-induced more accessible structures of 3’UTR are revealed to correlate with post-transcriptional mRNA decrease. Furthermore, we demonstrate that DHX36 binding sites are enriched for N6-methyladenosine (m6A) modification and YTHDF1 binding. Finally, we experimentally validate that YTHDF1 binding is repelled to DHX36 loss-induced structure inaccessibility and YTHDF1 loss-induced mRNA stabilization could be a source of DHX36 loss-induced mRNA increase. Altogether, our findings uncover the effect of DHX36 binding on in vivo mRNA structure and propose a plausible mechanism of how RNA secondary structure change involves in post-transcriptional regulation through orchestrating YTHDF1 binding.

2024-10-03 | GSE237159 | GEO

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (Structure-seq)

2024-10-03 | GSE237160 | GEO

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding

Project description:Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding

| PRJNA994085 | ENA

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (RBNS)

Project description:Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (RBNS)

| PRJNA994088 | ENA

Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (Structure-seq)

Project description:Transcriptomic RNA structure mapping unveils the structure dynamic induced by DHX36 binding (Structure-seq)

| PRJNA994087 | ENA

Dynamic epi-transcriptomic landscape mapping with disease progression in ER-positive breast cancer

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

2023-05-16 | GSE176535 | GEO

High-resolution mapping reveals a conserved, widespread, dynamic meiotically regulated mRNA methylation program

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-07-18 | E-GEOD-54365 | biostudies-arrayexpress

Structure and functional mapping of the KRAB-KAP1 repressor complex

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

2022-10-10 | GSE215016 | GEO

Genome-wide mapping of Hif-1Î± binding sites in zebrafish

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-03-22 | E-GEOD-70886 | biostudies-arrayexpress

Genome-wide mapping of FOXM1 binding reveals co-binding with estrogen receptor alpha in breast cancer cells

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-01-07 | E-GEOD-40767 | biostudies-arrayexpress

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