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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

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			Action	DRS
	SRR13360352_1.fastq.gz	Fastqsanger.gz
	SRR13360352_2.fastq.gz	Fastqsanger.gz
	SRR13360353_1.fastq.gz	Fastqsanger.gz
	SRR13360353_2.fastq.gz	Fastqsanger.gz
	SRR13360354_1.fastq.gz	Fastqsanger.gz

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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

Cultured Mouse Podocytes

Project description:Cultured Mouse Podocytes

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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

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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

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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

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.

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