Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single nucleus inDrops to profile adult human kidney

ABSTRACT: Single nucleus inDrops to profile adult human kidney

PROVIDER: PRJNA464435 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7130925_1.fastq.gz	Fastqsanger.gz
	SRR7130925_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Single nucleus inDrops to profile adult human kidney

Project description:Single nucleus inDrops to profile adult human kidney

2018-06-19 | GSE114156 | GEO

Comparative analysis of kidney organoid and adult human kidney single cell and single nucleus transcriptomes

Project description:Comparative analysis of kidney organoid and adult human kidney single cell and single nucleus transcriptomes

| PRJNA484783 | ENA

Advantages of single nucleus over single cell RNA-seq in adult kidney

Project description:Advantages of single nucleus over single cell RNA-seq in adult kidney

| PRJNA489475 | ENA

adult zebrafish kidney cells

Project description:adult zebrafish kidney cells

| PRJNA760458 | ENA

Comparative analysis of kidney organoid and adult human kidney single cell and single nucleus transcriptomes

Project description:We analyzed single cell transcriptomes over 80,000 cells isolated from 65 organoids differentiated from iPSCs and ESCs using two different protocols. We find that both protocols generate kidney organoids that contain a diverse range of kidney cells at differing ratios as well as non-renal cell types. We reconstructed lineage relationships during organoid differentiation through pseudotemporal ordering, and identified transcription factor networks associated with fate decisions. When comparing to adult human kidney, we reveal immaturity of all kidney organoid cell types. These results define impressive kidney organoid cell diversity, identify incomplete differentiation as a major roadblock for current directed differentiation protocols and provide a human adult kidney snRNA-seq dataset against which to benchmark future progress.

2018-10-13 | GSE118184 | GEO

Single nucleus RNA-seq, ATAC-seq, and multiomic sequencing of adult human kidney

Project description:Single nucleus RNA-seq, ATAC-seq, and multiomic sequencing of adult human kidney

| PRJNA909297 | ENA

Single nucleus RNA-seq, ATAC-seq, and multiomic sequencing of adult human kidney

Project description:In this study, we generated a single nucleus multiomic (snRNA-seq and snATAC-seq) dataset of adult human kidney. We developed a bioinformatic tool to analyze this dataset by identifying key cis-regulatory elements and transcription factors associated with specific cell types and states. We applied this tool to identify transcription factors implicated in proximal tubule cell injury and failed repair states. We demonstrate this tool can be applied to single cell multiomic datasets to derive insight into cell type- and state-specific gene regulatory networks.

2023-01-02 | GSE220251 | GEO

Kidney organoids gene expression profile

Project description:Kidney organoids gene expression profile

| PRJNA691477 | ENA

Advantages of single nucleus over single cell RNA-seq in adult kidney

Project description:A key limitation in single cell genomics is generating a high-quality single cell suspension that contains rare or difficult to dissociate cell types and is free of RNA degradation or transcriptional stress responses. Samples with unpredictable availability or that must be collected at several timepoints present additional challenges. Using adult mouse kidney, we compared single-cell RNA sequencing (scRNA-seq) data generated using DropSeq with snRNA-seq data generated from nuclei using sNuc-DropSeq, DroNc-seq and 10X Chromium. We validated snRNA-seq on fibrotic kidney from day 14 unilateral ureteral obstruction (UUO).

2018-10-13 | GSE119531 | GEO

RNA-SEQ analysis of various developing and adult kidney components.

Project description:We used micro-dissection techniques and/or FACS to isolate cell types from the developing and adult kidney (E11.5 ureteric buds, E12.5, P1 and P4 cap mesenchyme, E15.5 collecting ducts, proximal tubules, ureter, Adult renal proximal tubules, podocytes, endothelial and mesangial cells). RNA-SEQ analysis was performed to determine the transcriptional profile of each cell type, identify component specific transcripts and isoforms and cell-type specific long-noncoding RNAs. In addition the unbiased nature of RNA-SEQ will potentially identify novel transcripts that have not been annotated in the database. Total RNA is obtained from micro-dissected and/or FACS isolated embryonic and adult kidney components. The long term goal is to generate a transcriptional atlas of developing kidney.

2015-01-27 | E-GEOD-64959 | 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