Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

PARP1 binds and regulates expression of extracellular matrix genes in renal tubular epithelial cells [RNA-Seq]

ABSTRACT: PARP1 (Poly adenosine diphosphate ribose polymerase 1) is a ribozyme activated by a broken single-stranded DNA. Recent studies implicate PARP1 not only binds DNA but also be an RNA-binding protein. PARP1 participate in the regulation of renal ischemia-reperfusion injury through binding RNAs, but the mechanism is not clear. Reduced levels of PARP1 led to a significant decrease in cell proliferation and necrosis in the renal ischemia-reperfusion injury cells. In this study, RNA‑seq analysis of the transcriptomes of HK-2 cells with PARP1 knockdown, revealed that genes related extracellular matrix organization and immune response were under global transcriptional regulation.

ORGANISM(S): Homo sapiens

PROVIDER: GSE157557 | GEO | 2022/05/06

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

PARP1 binds and regulates expression of extracellular matrix genes in renal tubular epithelial cells [RIP-Seq]

Project description:To exploit the potential function of PARP1 during renal IRI by binding target RNA to regulate its expression, we obtained PARP1 bound peaks in proximal tubular epithelial cell (HK-2) by iRIP-seq for the first time, which showed that the bind peaks of PARP1_IP group is more enriched at GGUAA-rich motifs and PARP1 preferentially bound to the downstream of TSS (transcription start site) and upstream of TTS (transcription termination site). iRIP-seq analysis was used to decipher RBP binding sites and revealed the RNA that interacts with PARP1 within the genome of HK-2 cells.

2022-05-06 | GSE157558 | GEO

RNA microarray of rat kidney treated with or without silicon nano-particles against ischemia reperfusion injury

Project description:RNA microarray was performed to evaluate the efficacy of silicon nano-particles on renal transcriptomes of rats against ischemia reperfusion injury. We compared the transcriptomes of ischemia reperfusion injury model rats with or without oral administration of silicon nano-particles. We also tried to check whether the oral silicon nano-particles intake downregulated the biological processes related to oxidative stress.

2020-02-04 | E-MTAB-8687 | biostudies-arrayexpress

McDougal2017 - Metabolism in ischemic cardiomyocytes

Project description:Heart disease remains the leading cause of death globally. Although reperfusion following myocardial ischemia can prevent death by restoring nutrient flow, ischemia/reperfusion injury can cause significant heart damage. The mechanisms that drive ischemia/reperfusion injury are not well understood; currently, few methods can predict the state of the cardiac muscle cell and its metabolic conditions during ischemia. Here, we explored the energetic sustainability of cardiomyocytes, using a model for cellular metabolism to predict the levels of ATP following hypoxia. We modeled glycolytic metabolism with a system of coupled ordinary differential equations describing the individual metabolic reactions within the cardiomyocyte over time. Reduced oxygen levels and ATP consumption rates were simulated to characterize metabolite responses to ischemia. By tracking biochemical species within the cell, our model enables prediction of the cell’s condition up to the moment of reperfusion. The simulations revealed a distinct transition between energetically sustainable and unsustainable ATP concentrations for various energetic demands. Our model illustrates how even low oxygen concentrations allow the cell to perform essential functions. We found that the oxygen level required for a sustainable level of ATP increases roughly linearly with the ATP consumption rate. An extracellular O2 concentration of ~0.007 mM could supply basic energy needs in non-beating cardiomyocytes, suggesting that increased collateral circulation may provide an important source of oxygen to sustain the cardiomyocyte during extended ischemia. Our model provides a time-dependent framework for studying various intervention strategies to change the outcome of reperfusion.

2024-09-02 | BIOMD0000000961 | BioModels

Autologous adipose-derived cells transiently moderate inflammation and fibrogenesis in early renal ischemia reperfusion injury

Project description:Adipose-derived regenerative cell (ADRC) heterogeneity and functionality in renal ischemia reperfusion injury

2019-10-25 | GSE139318 | GEO

miRNA profiling of urinary exosomes to assess the progression of acute kidney injury

Project description:Using renal ischemia-reperfusion injury as a model of acute kidney injury, we deteremined temporally-released miRNAs released in urinary exosomes during the injury

2019-01-05 | GSE124669 | GEO

Effect of tubular IKKb deletion in acute ischemic kidney injury

Project description:To establish the role of Ikkb during acute kidney injury, we use a mouse line with a specific deletion of Ikkb in the renal tubular system and exposed them to ischemia/reperfusion. Sample collection were done 2 days and 14 days after ischemia/reperfusion.

2022-07-09 | GSE207430 | GEO

The analysis of differential gene expression after remote ischemic preconditioning of renal ischemia reperfusion injury

Project description:To investigate the mechanism by which ischemic preconditioning (IPC) produces tissue tolerance to renal ischemia reperfusion injury in a pig model

2016-09-02 | GSE72646 | GEO

Project description:Transcriptome Analysis of Renal Ischemia/Reperfusion Injury

| PRJNA763002 | ENA

Effects of Poly (ADP-ribose) Polymerase Inhibitor Treatment on the Repair Process of Ischemic Acute Kidney Injury

Project description:The role of PARP inhibitors in the repair process of renal remains unclear. The effects of JPI-289, a novel PARP inhibitor, during the healing phase after renal ischemia-reperfusion injury were investigated.

2023-08-03 | GSE239905 | GEO

The analysis of differential gene expression after remote ischemic preconditioning of renal ischemia reperfusion injury

Project description:To investigate the mechanism by which ischemic preconditioning (IPC) produces tissue tolerance to renal ischemia reperfusion injury in a pig model 15 female Yorkshire pigs were divided into three groups: 1: no IPC and 90 minutes warm ischemia; 2: remote IPC with an early window followed by 90 min warm ischemia; 3: remote IPC with a late window followed by warm ischemia 24 hrs later. Kidney tissues were obtained after 72 hours.

2016-09-02 | E-GEOD-72646 | 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