Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional profiling of organoid glomeruli isolated from human kidney organoids modelling congenital nephrotic syndrome

ABSTRACT: To investigate the impact of various NPHS2 homozygous point mutations on podocyte biology in induced pluripotent stem cell (iPSC)-derived human kidney organoids, an iPSC allelic series was generated from a control fibroblast line and two iPSC lines were derived from patient blood samples (one homozygous R168H and one unaffected relative) iPSCs were differentiated into kidney organoids, organoids glomeruli were harvested and we performed gene expression profiling using data obtained from RNA-seq of 3 sets of 4 organoids for each genotype at D7+14 of our differentiation protocol (Takasato et al, Nature 2016)

ORGANISM(S): Homo sapiens

PROVIDER: GSE205647 | GEO | 2022/09/07

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Human iPSC derived glomeruli facilitate accurate modelling of podocytopathy

Project description:Podocytes are the highly specialised cells within the glomeruli of the kidney that maintain the filtration barrier by forming interdigitating foot processes and slit-diaphragms. Disruption to these features result in proteinuria. Studies into podocyte biology and disease has been hampered by a paucity of in vitro models of this non-proliferative cell type. Here we characterise sieved glomeruli from kidney organoids derived from human pluripotent stem cells. Compared to conditionally immortalised podocytes, organoid-derived glomeruli show superior podocyte-specific gene and protein expression, morphology and functional properties. Using CRISPR-derived MAFB reporter iPSC lines, homozygous MAFB mutant organoids recapitulated the anticipated disease related transcriptional changes. Culture of kidney organoids on chicken chorioallantoic membrane resulted in glomerular vascularisation, glomerular filtration barrier assembly, formation of slit diaphragms and fenestrated endothelial cells. This definitively demonstrates that human iPSC kidney organoid-derived glomeruli can serve as an accurate model of human podocytopathies and glomerular disease in vitro.

2018-12-04 | GSE99583 | GEO

Transcriptional profiling of organoid glomeruli isolated from human kidney organoids modelling congenital nephrotic syndrome

Project description:Transcriptional profiling of organoid glomeruli isolated from human kidney organoids modelling congenital nephrotic syndrome

| PRJNA846774 | ENA

Differential gene expression in NPHS2-Cre +/+ mouse glomeruli versus wild-type control

Project description:To investigate differential gene expression that might account for the differing glomerular phenotype of NPHS2-Cre +/+ mice when compared with wild-type control, including altered GBM thickness, loss of normal foot process morphology, and decrease in podocyte number, RNA sequencing analysis was performed on glomeruli extracted from both NPHS2-Cre +/+ and wild-type control mice.

2019-02-11 | GSE117331 | GEO

LSAGE Library Human Renal Glomeruli

2007-06-13 | GSE8114 | GEO

LSAGE Library Human Renal Glomeruli

Project description:Glomeruli were isolated from the kidney of a 72 yo male patient. The kidney was surgically removed due to renal cell carcinoma. The glomeruli were isolated from uninvolved renal parenchyma. Histology (H&E) of glomeruli and interstitium was normal. Keywords: Kidney Subcompartment Glomeruli were isolated using the sieving technique in ice-cold PBS, followed by isolation of total RNA with RNeasy kit. RNA was judged intact by agarose gel electrophoresis. SAGE library was custom-synthesized by Genzyme Corportation.

2007-06-12 | E-GEOD-8114 | biostudies-arrayexpress

H3K27ac ChIP-seq from human glomeruli

Project description:In order to understand the kidney compartment specific epigenetic feature of glomeruli, we isolated glomeruli from human kidney biopsy and performed H3K27ac ChIP seq.

2021-03-26 | GSE142593 | GEO

Human iPSC-derived glomeruli provide an advanced model to interrogate podocyte biology and accurately recapitulate podocytopathy

Project description:Podocytes are highly specialised cells within the glomeruli of the kidney that maintain the filtration barrier by forming interdigitating foot processes and slit-diaphragms. Disruption to these features result in proteinuria and glomerulosclerosis. Studies into podocyte biology and disease have previously relied on conditionally immortalised cell lines due to the non- proliferative nature of this cell type. Here we describe an advanced model to study both podocyte and glomerular biology using isolated glomeruli from kidney organoids derived from human pluripotent stem cells.

2018-12-04 | GSE111992 | GEO

Genome-wide profiling of expression of human glomeruli and tubules

Project description:Glomeruli and tubules are two key components in adult kidney cortex, and are important for kidney function. In order to understand the transcriptional regulation of kidney glomeruli and tubules, we generated genome wide transcription profiles with laser isolated glomeruli and tubules. Human Transcriptome 2.0 GeneChips (HTA2.0) were used to examine global gene expression.

2021-03-26 | GSE116034 | GEO

Characterizing human pluripotent stem cell derived kidney organoids by single-cell RNA sequencing of whole organoids and bulk RNA sequencing of organoid-derived podocytes for comparison with immortalized podocytes and in vivo podocytes

Project description:We performed single-cell sequencing to characterize the cell types that are present in human induced pluripotent stem cell derived (iPS) kidney organoids and their transcriptional profile. Furthermore, using bulk RNA sequencing we compared the transcriptional profile of kidney organoid derived podocytes from a wildtype iPS line, an iPS line with 2 mutations in podocin (NPHS2) which causes clinical manifestation of nephrotic syndrome and an iPS line with one of these mutations repaired which causes no clinical symptoms. For reference and comparison we took along human in vivo glomeruli and a human conditionally immortalized podocyte cell line.

2022-04-25 | GSE181954 | GEO

Core TF Foxc1/2 reinforce differentiation of adult podocyte in glomeruli

Project description:We identified Fox1 and Foxc2 core transcription factors in kidney glomeruli. To investigate their transcriptional regulatory roles in glomeruli, we performed ChIPseq of Foxc1 and Foxc2 in adult mouse kidney glomeruli. The genome wide distribution of Foxc1/2 binding sites revealed they regulated the differentiation and mature state of adult podocyte to maintain kidney homeostatis.

2021-03-26 | GSE116302 | GEO

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