Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Endothelial protein interaction partners of the lncRNA PCAT19

ABSTRACT: PCAT19 is an endothelial-enriched lncRNA that contributes to the proliferation-quiescence switch in a cell density-dependent manner. Here we performed an antisense-oligonucleotide pulldown of the PCAT19 lncRNA followed by mass spectrometry to identify protein interaction partners of PCAT19. Interaction partners were further analysed for their potential role with PCAT19.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Cell Culture

SUBMITTER: Ilka Wittig

LAB HEAD: Matthias S. Leisegang

PROVIDER: PXD032669 | Pride | 2022-09-29

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	P20_031_James_Sample13_B.raw	Raw
	P20_031_James_Sample13_C.raw	Raw
	P20_031_James_Sample13_D.raw	Raw
	P20_031_James_Sample13_E.raw	Raw
	P20_031_James_Sample14_B.raw	Raw

Items per page:

1 - 5 of 51

Similar Datasets

Interacting proteins on lncRNA SMANTIS in THP-1 cells

Project description:The lncRNA SMANTIS (formerly known as MANTIS, AK125871, n342419) functions as a regulator of cell function in endothelial cells and for adhesion to monocytes. Here, we investigated the function of SMANTIS in THP-1 monocytes. By using an antisense oligonucleotide pulldown approach followed by LC/MS, the protein interaction partners of SMANTIS in THP-1 cells were identified. This approach was performed in NTC (non-targeting control) THP-1, where SMANTIS is present, and in SMANTIS-LentiCRISPR KO THP-1, where SMANTIS was removed. The data revealed that a lot of RNA-binding proteins interact with SMANTIS.

2025-01-07 | PXD048847 | Pride

Identification of lncRNA CALA-dependent protein interaction partners of G3BP1 in the cytoplasm

Project description:We previously identified the stimuli-responsive lncRNA CALA to impact endothelial cell function and identified G3BP1 as a main interaction partner of CALA in the cytoplasm of human umblical vein endothelial cells (HUVECs). To uncover the role of the lncRNA CALA in G3BP1-RNPs in the cytoplasm, we purified the G3BP1 interactome in control and CALA-silenced HUVECs via anti-G3BP1 immunoprecipitation followed by mass spectrometry. We thereby uncover the basal G3BP1 protein interactome in HUVECs and additionally identify lncRNA-dependent protein interactions of G3BP1 in the cytoplasm of HUVEC.

2022-07-04 | PXD033517 | Pride

VE-cadherin associated proteins in the absence of lncRNA LASSIE

Project description:The shear stress-regulated lncRNA LASSIE interacts with junctional proteins (e.g. PECAM-1, which interacts with VE-cadherin) and influences endothelial barrier function. Here we characterize the remodeling of the VE-Cadherin complex by the lncRNA LASSIE. LASSIE silenced HUVECs were subjected to co-immunoprecipitation using an anti-VE-cadherin antibody. Differentially associated proteins were identified by Mass spectrometry. This analysis revealed a significantly decreased association of cytoskeleton-linked proteins with VE-cadherin after silencing of LASSIE. Functional assays confirmed this result and characterized LASSIE as a stabilizer of junctional complexes in endothelial cells, important for normal shear stress sensing and barrier function.

2021-09-09 | PXD018725 | Pride

Antisense affinity selection of the lncRNA NTRAS in HeLa lysate

Project description:Biochemical characterization of the hypoxia-induced long non coding RNA NTRAS. NTRAS was found to regulate cell cycle progression, in vitro sprouting angiogenesis, and the paracellular permeability in human umbilical vein endothelial cells (HUVECs). Using desthiobiotinylated 2’O-Me-RNA probes, we purified endogenous NTRAS-protein-complexes and identified NTRAS interacting proteins by mass spectrometry.

2022-04-25 | PXD030620 | Pride

Identification of protein interaction partners of the lncRNA ADPGK-AS1

Project description:M2-like macrophage upregulated lncRNA ADPGK-AS1 regulates macrophage phenotype and modulates the influence of macrophages on lung tumor apoptosis and migration. Here we identified proteins that interact with ADPGK-AS1 that might give insight into how this regulation this is regulated on molecular level. We were able to identify interaction with mitochondrial ribosomal proteins, leading to regulation of mitochondrial oxidative phosphorylation.

2023-08-13 | PXD030605 | Pride

Identification of protein interaction partners of the lncRNA CALA

Project description:The stimuli-responsive lncRNA CALA impacts endothelial cell function as silencing impairs angiogenic capacity in vitro. To uncover the molecular mechanism of CALA, we here combined antisense affinity selection of CALA-RNPs with mass spectrometry to identify the protein interactome of CALA. We therefore specifically enrich CALA-RNPs using two distinct antisense probes targeting CALA (LFN – probe#1, LF – probe #2) over a scrambled, non-target control (Scr/NTC) and thereby uncover CALA to interact with components of ribonucleoprotein complexes.

2022-07-04 | PXD033516 | Pride

Identification of protein interaction partners of the lncRNA Lassie

Project description:The shear stress-regulated lncRNA LASSIE interferes with endothelial cell function as knockdown of Lassie affects apoptosis, proliferation and angiogenic sprouting in vitro. RNA-antisense purification and subsequent mass spectrometry analysis identifed junctional proteins (such as PECAM-1) as interactors of LASSIE . Additional functional analyses demonstrate a role of LASSIE in shear stress sensing and barrier function in endothelial cells, by stabilizing endothelial cell junctions through connection to the cytoskeleton.

2021-07-22 | PXD018724 | Pride

Proteome of the cortex of old Pink1-SNCA A53T double mutant Parkinson mice

Project description:Parkinson's Disease (PD) is primarily caused by aggregates of alpha synuclein (SNCA) in dopaminergic neurons of the substantia nigra, but PD is a systemic disease and may lead to PD-associated dementia complex. PD-associated encephalopathy is a late manifestation in PD patients at risk for example owing to mutations of the lysosomal enzyme glucocerebrosidase. Defects of lysosomal waste removal and aggregation of mutant alpha synuclein (SNCA) impacts of the proteome. Here, we studied the proteome of the prefrontal cortex in Pink1-/-SNCA A53T double mutant mice in comparison with their wildtype controls. Pink1-/-SNCA A53T mice carry a loss of function knock-in mutation of PTEN induced kinase (Pink1), plus the human A53T mutation of alpha synuclein (SNCA-A53T) [1, 2]. Homozygous Pink1-/-SNCA A53T double mutant mice were generated by crossing Pink1-/- mice (background: 129/SvEv) with A53T-SNCA-overexpressing PrPmtA mice (background: FVB/N) and then, interbreeding the littermates. Wildtype (WT) control mice are hybrids from a crossbreeding of 129/SvEv and FVB/N mice, which were descended from littermates of the respective single mutant animals. Pink1-/-SNCA A53T mice develop spontaneous motor symptoms at advanced ages, with a progressive incidence above 15 months of age. The phenotype of Pink1-/-SNCA A53T and wildtype control mice was observed during aging. Mice were euthanized at an age of 1-1.5 years (matched with the controls). The cortices were rapidly removed and frozen in liquid nitrogen and processed for label free proteomic analyses.

2025-10-21 | PXD039172 | Pride

Identification of VE-cadherin associated proteins regulated through the lncRNA LASSIE

Project description:The shear stress-regulated lncRNA LASSIE interacts with cytoskeletal proteins as shown by RNA-antisense purification and subsequent mass spectrometry analysis using an anti-LASSIE and a non-targeting 3’ Desthiobiotin-TEG labeled 2’ O-Me-RNA. As this analysis resulted in high protein binding to the non-targeting control oligonucleotide, the RNA antisense purification was repeated in HUVECs treated with control and anti-LASSIE siRNA. Mass spectrometry analysis confirmed binding of LASSIE to the Intermediate filament protein nestin, as nestin enrichment was decreased in the absence of LASSIE. Additional functional analyses demonstrate a role of LASSIE in shear stress sensing and barrier function in endothelial cells, by stabilizing endothelial cell junctions through connection to the cytoskeleton.

2021-09-09 | PXD018734 | Pride

Identification of interacting proteins of lncRNA HIF1α-AS1

Project description:LncRNA Hypoxia-inducible factor 1α-antisense 1 (HIF1α-AS1) is located on the antisense strand of the important Hypoxia-inducible factor 1α (HIF1α) gene, but being transcribed in antisense direction along the HIF1α promoter. Here we used the 3’end biotinylated HIF1a-AS1 RNA and a control RNA for RNA Pulldown and searched for interacting proteins in nuclear extracts of human umbilical vein endothelial cells (HUVEC).

2022-09-23 | PXD023512 | 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