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Transcriptomic profile of human kidney epithelial cells - derived from cysts of ADPKD donors

ABSTRACT: Transcriptomic profile of human kidney epithelial cells - derived from cysts of ADPKD donors

PROVIDER: PRJNA556225 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9734440.fastq.gz	Fastqsanger.gz
	SRR9734440_1.fastq.gz	Fastqsanger.gz
	SRR9734440_2.fastq.gz	Fastqsanger.gz
	SRR9734441.fastq.gz	Fastqsanger.gz
	SRR9734441_1.fastq.gz	Fastqsanger.gz

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Transcriptomic profile of human kidney epithelial cells - derived from cysts of ADPKD donors

Project description:We utilized primary cyst cultures derived from human ADPKD donors transfected with RGLS4326 to demonstrate the human translational potential of RGLS4326. Results show that RGLS4326 treatment globally de-repressed mRNAs of predicted miR-17 target genes in primary human ADPDK cyst cells.

2019-08-08 | GSE134720 | GEO

Expression data from renal cysts of autosomal dominant polycystic kidney disease (ADPKD) patients

Project description:To elucidate the molecular pathways that modulate renal cyst growth in autosomal dominant polycystic kidney disease (ADPKD) Keywords: Disease state analysis We performed global gene profiling on renal cysts of different size (small cysts: less than 1 ml, n=5; medium cysts: between 10-25 ml, n=5; large cysts: greater than 50 ml, n=3) and minimally cystic tissue (MCT, n=5) from five PKD1 polycystic kidneys. Additionally, non-cancerous renal cortical tissue from three nephrectomized kidneys with isolated renal cell carcinoma was used as normal control tissue (n=3). This dataset is part of the TransQST collection.

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Extensive DNA methylation variation across a single ADPKD kidney

Project description:We have previously described global hypomethylation and site-specific DNA methylation changes which are associated with disease-state renal tissue in Autosomal Dominant Polycystic Kidney Disease (ADPKD). However, to-date there are no available data on the pattern of DNA methylation across an ADPKD kidney. Here we describe the methylome of eight individual cysts from a single ADPKD patient and peform an intra-individual analysis to identify regions of DNA methylation variability.

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Expression data from renal cysts of autosomal dominant polycystic kidney disease (ADPKD) patients

Project description:To elucidate the molecular pathways that modulate renal cyst growth in autosomal dominant polycystic kidney disease (ADPKD) Keywords: Disease state analysis

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Comparative proteomic analysis of microvescicoles and exosomes isolated from urine of medullary sponge kidney disease (MSK) versus Autosomal dominant polycystic kidney disease (ADPKD) patients.

Project description:Microvescicles (MV) and exosomes (EX) seem to be involved in the pathogenetic machinery of the autosomal dominant polycystic kidney disease (ADPKD), but, at the moment, no studies have assessed their role in medullary sponge kidney disease (MSK), a sporadic kidney malformation featuring cysts, nephrocalcinosis and recurrent renal stones. To discover their role in this disease we employed a proteomic-based research strategy.

2019-11-25 | PXD011283 | Pride

microRNA (miRNA) expression data from renal cysts of autosomal dominant polycystic kidney disease (ADPKD) patients

Project description:microRNA (miRNA) expression data from renal cysts of autosomal dominant polycystic kidney disease (ADPKD) patients

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Identification of ADPKD-related Genes and Pathways in the Cells Overexpressing PKD2

Project description:Based on the dosage effect hypothesis, renal cysts could arise in transgenic murine models overexpressing either PKD1 or PKD2, which are causal genes responsible for autosomal dominant polycystic kidney disease (ADPKD). To prove whether PKD genes overexpression is a universal mechanism driving cystogenesis or is merely restricted to rodents, other animal models are required. Previously, we failed to observe any renal cysts in a PKD2 overexpression transgenic pig model partially due to epigenetic silencing of transgene. Thus, to explore the feasibility of pig models and identification potential affected genes/pathways related to ADPKD, LLC-PK1 cells with high PKD2 expression were generated. RNA-seq was performed and MYC, IER3, ADM were found to be commonly upregulated genes in different PKD2 overexpression cell models. MYC is a well-characterized factor contributing to cystogenesis, and ADM is a biomarker for chronic kidney disease. Thus, theses genes might be indicators of disease progression. Additionally, some ADPKD associated pathways, e.g., MAPK, were also enriched in the cells. Besides, GO analysis demonstrated proliferation, apoptosis, cell cycle regulation, which are hall marks of ADPKD were disturbed. Therefore, our experiment not only identified some biomarkers or indictors regarding ADPKD, but also demonstrated high PKD2 expression would like to drive cystogenesis in future porcine models.

2019-12-04 | GSE141355 | GEO

Epigenetic silencing of PKD1 in autosomal dominant polycystic kidney disease

2012-02-16 | GSE35831 | GEO

Epigenetic silencing of PKD1 in autosomal dominant polycystic kidney disease

Project description:ADPKD (Autosomal dominant polycystic kidney disease) is the most common inherited disorders and is characterized by growth of numerous cysts filled with fluid in the kidneys. Ultimately, it leads to kidney failure. The mutations of PKD1 and PKD2 account for approximately 85 and 15 percent of ADPKD, respectively. However, the mechanisms related to genetic mutation of PKD1 and PKD2 are still unclear. To investigate altered gene expression levels, Affymetrix microarray was performed using the kidney tissue from normal and ADPKD patients. Total RNAs were isolated from kidney of human normal (49 years old/ male) and ADPKD patients (62 years old/ male, 67 years old/ male) using NucleoSpin® RNA Kit (MACHEREY-NAGEL) according to the manufacturer’s instructions. We used tha Affymetrix GeneChip Human Gene 1.0 ST Array. Per RNA sample, 300 ng was used as the input into the Affymetrix procedure as recommended by the manufacturer's protocol.

2012-02-16 | E-GEOD-35831 | biostudies-arrayexpress

Polycystic Kidney Disease Progression Expression Analysis

Project description:Polycystic Kidney Disease (PKD) is a genetic disease of the kidney characterized by the gradual replacement of normal kidney parenchyma by fluid-filled cysts and fibrotic tissue. Autosomal Dominant Polycystic Kidney Disease (ADPKD) is caused by mutations in the PKD1 or PKD2 gene. Here we present an RNASeq experiment designed to investigate the effect of a kidney specific and Tamoxifen inducible knockout of the Pkd1 gene in mice. The Pkd1cko mice were harvested at different time points 2-weeks, 3-weeks, 5-weeks, 10.5-weeks, 11-weeks and 15-weeks after gene inactivation.

2019-12-24 | E-MTAB-8086 | biostudies-arrayexpress

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