Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

MATR3 pathogenic variants differentially impair its cryptic splicing repression function

ABSTRACT: To investigate the role of MATR3 in splicing regulation, we performed RNA sequencing on HeLa cells treated with either control siRNA or MATR3 siRNA and then conducted alternative and cryptic splicing analysis

ORGANISM(S): Homo sapiens

PROVIDER: GSE205343 | GEO | 2024/01/10

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Conserved protein Pir2ARS2 mediates gene repression through cryptic introns in lncRNAs

Project description:Long non-coding RNAs (lncRNAs) are components of epigenetic control mechanisms that ensure appropriate and timely gene expression. The functions of lncRNAs are often mediated through associated gene regulatory activities, but how lncRNAs are distinguished from other RNAs and recruit effector complexes is unclear. Here we utilize the fission yeast Schizosaccharomyces pombe to investigate how lncRNAs engage silencing activities to regulate gene expression in cis. We find that invasion of lncRNA transcription into the downstream gene body incorporates a cryptic intron required for repression of that gene. Our analyses show that lncRNAs containing cryptic introns are targeted by the conserved Pir2ARS2 protein in association with splicing factors, which recruit RNA processing and chromatin modifying activities involved in gene silencing. Pir2 and splicing machinery are broadly required for gene repression. Our finding that human ARS2 also interacts with splicing factors suggests a conserved mechanism mediates gene repression through cryptic introns within lncRNAs.

2020-04-07 | PXD018373 | Pride

4SU-iCLIP of PTBP1 from HEK293 cells with or without MATR3 depletion

Project description:The aim of the experiment was to compare binding of PTBP1 in presence and absence of MATR3. HEK293T cells were transfected with siRNA targeting MATR3 or control sequences and labelled with 4thio-uridine for 8 hours (100µM, crosslinking 2x400mJ/cm2 365nm UV light).

2018-05-01 | E-MTAB-6286 | biostudies-arrayexpress

4SU-iCLIP of MATR3 from HEK293 cells with or without PTBP1 depletion

Project description:The aim of the experiment was to compare binding of MATR3 in presence and absence of PTBP1. HEK293T cells were transfected with siRNA targeting PTBP1 and PTBP2 or control sequences and labelled with 4thio-uridine for 8 hours (100µM, crosslinking 2x400mJ/cm2 365nm UV light).

2018-05-01 | E-MTAB-6267 | biostudies-arrayexpress

Overlapping Splicing Regulatory Networks of the Nuclear Matrix Protein Matrin3 and PTB

Project description:Transcription and alternative splicing profiling in control and Matr3 siRNA treated HeLa S3 cells.

2014-11-27 | E-MTAB-3092 | biostudies-arrayexpress

Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression [smRNA-seq]

Project description:Long non-coding RNAs (lncRNAs) dynamically regulate gene expression during development and in response to environmental conditions. In S. pombe, lncRNAs repress the expression of nearby genes via a mechanism involving silencing effector proteins. In this study, we find that invasion of a lncRNA into the neighboring gene results in inclusion of a cryptic intron that is required for its repressive activity. We show that cryptic introns are targeted by the conserved protein Pir2/ARS2 in association with splicing factors, which provide a scaffold for the recruitment of RNA degradation factors and chromatin modifying activities.

2020-04-07 | GSE135160 | GEO

Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression [RNA-Seq]

2020-04-07 | GSE135159 | GEO

Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression [RIP-seq]

2020-04-07 | GSE135158 | GEO

Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression [ChIP-seq]

2020-04-07 | GSE135157 | GEO

MATR3-binding RNAs in AML12 cells [RIP-Seq]

Project description:We performed RNA binding protein immunoprecipitation (RIP) assay with anti-IgG/anti-MATR3 antibody. The RNA libraries were constructed using rib-off and strand-specific kits. Next-generation sequencing (NGS) were performed to analyze MATR3-binding RNAs.

2023-06-28 | GSE200244 | GEO

MATR3-binding RNAs in ES cells [RIP-Seq]

2023-06-28 | GSE225501 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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