Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

IrCLIP of SRSF3 in a mouse epicardial cell line

ABSTRACT: irCLIP of SRSF3 in a mouse epicardial cell line

PROVIDER: PRJEB53737 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR9871494.fastq.gz	Fastqsanger.gz
	ERR9871495.fastq.gz	Fastqsanger.gz
	ERR9871496.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

irCLIP of SRSF3 in a mouse epicardial cell line

Project description:This experiment aims to map SRSF3 binding to the global transcriptome in a mouse epicardial cell line

2022-12-31 | E-MTAB-11853 | biostudies-arrayexpress

YTHDF2 irCLIP-seq

Project description:We performed irCLIP-seq to determine the mRNA targets of YTHDF2 in mouse hematopoietic progenitor cell line HPC-7

2018-08-17 | GSE107953 | GEO

m6A-irCLIP of mouse CD4+ T cell RNA

Project description:Identify m6A modified residues by m6A-irCLIP in polyA selected RNA from mouse CD4+ T cells

2018-02-14 | GSE107055 | GEO

Heterogeneity of mouse pro-epicardial cells

Project description:Single cell RNA sequencing (scRNA-Seq) is applied to charaterize the pro-epicardial cells (proEpiCs) in mouse pro-epicardial organ (PEO).

2020-04-04 | GSE148040 | GEO

m6A-irCLIP of mouse CD4+ T cell RNA

Project description:m6A-irCLIP of mouse CD4+ T cell RNA

| PRJNA418923 | ENA

miRNA content from human and mouse epicardial extracellular vesicles

Project description:The goal of the present study is to determine the miRNA cargo present in epicardial extracellular vesicles. For that, epicardial cells and human primary epicardial cells were cultured. Conditioned media was isolated from mouse epicardial cells and human primary epicardial cells derived from right atrial appendages in two different states: “cobble” (inactive) cells and “spindle” (active) . RNA from EVs was isolated and sequenced to determine the miRNA content profile.

2020-11-18 | GSE161630 | GEO

YTHDF2 irCLIP-seq

Project description:YTHDF2 irCLIP-seq

| PRJNA422164 | ENA

Rbm15-irCLIP-seq

Project description:Rbm15-irCLIP-seq

| PRJNA647279 | ENA

Analysis of gene expression and splicing after doxycycline-induced knockdown of SRSF3

Project description:SRSF3 is overexpressed in human invasive ovarian cancer and its overexpression is required for cancer cell growth and survival. To decipher the mechnisms behind the role of SRSF3 in ovarian cancer, we examined the gene expression and splicing in the ovarian cancer cell line that was engineered to express a doxycycline-induced SRSF3 siRNA, which was able to knockdown SRSF3 expression by 90% and induce apoptosis. Total RNAs extracted from A2780/SRSF3si2, a subline of ovarian cancer cell line A2780, treated with or without doxycycline at 0.1ug/ml for three days were analyzed using Affymetrix GeneChip® Human Exon 1.0 ST Array

2015-08-06 | E-GEOD-71745 | biostudies-arrayexpress

irCLIP-RNP reveals patterns of dynamic protein associations on RNA

Project description:RNA binding proteins (RBPs) interact with RNA targets to control an array of processes, including RNA splicing, stability, transport, and translation1-3. Dysfunctional RNA-RBP interactions contribute to pathogenesis of a plethora of human diseases1,4,5, underscoring the need for a greater understanding of the nature and dynamics of RNA-protein assemblies. The capacity to study native RNA-dependent protein assemblies in living cells, however, has been limited. To address this, non-isotopic ligation-based ultraviolet crosslinking immunoprecipitation6 was combined with mass spectrometry (irCLIP-RNP) to identify RNA-dependent associated proteins (RDAPs) co-bound to RNA with specific RBPs of interest. irCLIP-RNP defined landscapes of complex and multimeric protein assemblies on RNA, uncovering previously unknown patterns of RBP associations on RNA. This included cell-type-selective patterned relationships between RDAPs and primary RBPs, such as cell context-dependent reciprocal impacts of HNRNPU and NONO on each other’s RDAP landscapes. irCLIP-RNP also defined dynamic RDAP remodeling patterns in response to epidermal growth factor (EGF) and uncovered EGF-induced recruitment of UPF1 adjacent to HNRNPC to effect splicing surveillance of mRNAs that mediate cell proliferation. The development of sequential immunoprecipitation irCLIP (RE-irCLIP) supported the same-RNA-molecule co-localization of irCLIP-RNP-identified associations. Thus, irCLIP-RNP and RE-irCLIP provide a framework to identify and characterize dynamic RNA-protein assemblies in living cells.

2025-01-28 | PXD053494 | Pride

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