Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA sequencing of mouse podocytes with and without knockdown of Pdss2

ABSTRACT: RNA sequencing of mouse podocytes with and without knockdown of Pdss2

PROVIDER: PRJNA689782 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

RNA sequencing of mouse podocytes with and without knockdown of Pdss2

Project description:We report trancriptional changes between wildtype mouse immortalized podocytes and compared to podocytes with shRNA-knockdown of Pdss2.

2021-02-01 | GSE164272 | GEO

Deep RNA Sequencing of native mouse podocytes and non-podocytes glomerular cells

Project description:Purpose: Next-generation sequencing (NGS) was used to define the transcriptome of native mouse podocytes and non-podocytes glomerular cells as part of a project aiming to define the molecular fingerprint of mouse podocytes. Method: Glomeruli from 29 Gt(ROSA)26Sortm4(ACTB-tdTomato,-EGFP)Luo/J x hNPHS2Cre mice at the age of 10 weeks were purified and a single cell solution was prepared to seperate GFP-expressing (podocytes) and GFP-negative (non-podocytes glomerular cells) cells by FACS sorting. RNA was extracted and prepared for further analysis using directional, polyA+ library preparation. An Illumina HiSeq2500 was used for a paired-end sequencing of 100 cycles . Salmon and Sleuth were used for downstream analysis. Results: A total of 100 Million reads each from podocytes and non-podocytes glomerular cells could be used for further analysis.

2019-01-01 | E-MTAB-5457 | biostudies-arrayexpress

Next-generation sequencing of control (scramble) and Myo1c knockdown human podocytes, with and without TGF-β treatment

Project description:Purpose: Next-generation sequencing (NGS) was used to identify cellular pathways and genes through systems-based analysis. The goals of this study are to identify NGS-derived transcriptome profiling (RNA-seq) in control and Myo1c knockdown human podocytes upon TGFβ stimulation. These high-throughput data were further validated through qRT–PCR methods to confirm the cellular pathways and genes affected due to genetic knockdown of Myo1c and TGF-β stimulation. Methods: Human control and Myo1c knockdown podocytes were differentiated for 14 days by thermoswitching from 33⁰C to 37⁰C and removal of growth factors, insulin-transferrin-selenium from the medium. These podocytes were incubated overnight in RPMI medium with 0.1% FBS and stimulated with 5ng/ml of TGF-β in the same medium for a period of 48 hours. Control and TGF-β stimulated podocytes were processed for RNA isolation and submitted to Novogene for RNA-Seq. All the experiments were performed in triplicates. Conclusions: Our study is first to describe the detailed analysis of TGF-β stimulated Myo1c knockdown podocyte transcriptomes using the RNA-seq technology. A comparative analysis of the differential expression profile was obtained between control vs. Myo1c knockdown podocytes, and control vs. Myo1c knockdown podocytes that were stimulated with TGF-β. Complex genetic network and genes effected due to Myo1c knockdown and TGF-β stimulation will provide a platform to define biological pathways in podocytes where Myo1c participates.

2018-08-21 | GSE118816 | GEO

Proteomics analysis of podocytes with alpha-galactosidase knockdown

Project description:We subjected human podocytes with and without alpha-Galactosidase knockdown to proteomic analysis.

2018-10-17 | PXD007080 | Pride

Deep RNA Sequencing of native mouse podocytes and non-podocytes glomerular cells

Project description:Deep RNA Sequencing of native mouse podocytes and non-podocytes glomerular cells

| PRJEB19358 | ENA

Gene expression analysis in mouse podocytes expressing shRNA directed against the long noncoding RNA Tug1

Project description:We generated two mouse podocyte cell lines stably transduced with either a shControl lentiviral construct or a shRNA lentiviral construct designed to target Tug1 RNA to investigate the consequences on the gene expression profile of Tug1 knockdown in differentiated mouse podocytes

2016-10-24 | GSE77506 | GEO

Next-generation sequencing of control (scramble) and Myo1c knockdown human podocytes, with and without TGF-β treatment

Project description:Next-generation sequencing of control (scramble) and Myo1c knockdown human podocytes, with and without TGF-β treatment

| PRJNA486852 | ENA

RNA-Seq of Cultured Mouse Podocytes

Project description:Investigation of mRNA changes in podocytes transfected with a miR-93 mimic or a nontargeting mimic. The design was meant to identify biologically significant, novel targets of the miR-93 microRNA in podocytes

2016-06-28 | E-GEOD-64080 | biostudies-arrayexpress

Differentiated mouse podocytes (SVI)

Project description:Transcriptomes of differentiated cells of the conditionally immortalized mouse podocyte cell line SVI (Schiwek et al., Kidney Int. 66: 91-101, 2004) were determined as described in Kabgani et al. (PLoS One 7:e34907, 2012). The transcriptomes of the podocyte cell line were mapped on a protein-protein interaction network of the podocyte (PodNet). Together with other transcriptomes taken from GEO, we analyzed differential gene regulation and differential regulation of protein-protein interactions between cultured podocytes and differentiated in vivo podocytes. Three independent batches were used.

2012-10-16 | E-GEOD-41523 | biostudies-arrayexpress

Differentiated mouse podocytes (SVI)

2012-10-16 | GSE41523 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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