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Transcriptome sequencing analysis of Zeb1-knockdown retina endothelial cells by RNA-seq

ABSTRACT: Transcriptome sequencing analysis of Zeb1-knockdown retina endothelial cells by RNA-seq

PROVIDER: PRJNA668145 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12797022_1.fastq.gz	Fastqsanger.gz
	SRR12797022_2.fastq.gz	Fastqsanger.gz
	SRR12797023_1.fastq.gz	Fastqsanger.gz
	SRR12797023_2.fastq.gz	Fastqsanger.gz
	SRR12797024_1.fastq.gz	Fastqsanger.gz

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Zeb1-knockdown retina endothelial cells

Project description:Zeb1-knockdown retina endothelial cells

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Transcriptome sequencing analysis of Zeb1-knockdown retina endothelial cells by RNA-seq

Project description:To understand the effect of Zeb1 knockdown on retina vasculature, we isolated endothelial cell from P16 control and Zeb1-knockdown mouse retina. RNA-seq results analysis showed that Zeb1 loss leads to enhanced proliferation and failed quiescence entry.

2023-10-08 | GSE159255 | GEO

Chromatin structure profiling of Zeb1-knockdown mouse retina endothelial cells by ATAC-seq

Project description:By comparing ATAC-seq from freshly isolated endothelial cells from control or Zeb1-knockdown retina, we observed an increase in the accessibility of chromatin structure in endothelial cells after Zeb1-knockdown. We used ATAC-seq to study the functional role of Zeb1 and identified genes that exhibited increase of accessibilities to their transcription start sites (TSS).

2023-10-08 | GSE159256 | GEO

Chromatin structure profiling of Zeb1-knockdown mouse retina endothelial cells by ATAC-seq

Project description:Chromatin structure profiling of Zeb1-knockdown mouse retina endothelial cells by ATAC-seq

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Zeb1-knockdown retina endothelial cells

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-10-08 | GSE159257 | GEO

ZEB1 insufficiency causes corneal endothelial cell state transition and altered cellular processing

Project description:The zinc finger e-box binding homeobox 1 (ZEB1) transcription factor is a master regulator of the epithelial to mesenchymal transition (EMT), and of the reverse mesenchymal to epithelial transition (MET) processes. ZEB1 plays an integral role in mediating cell state transitions during cell lineage specification, wound healing and disease. EMT/MET are characterized by distinct changes in molecular and cellular phenotype that are generally context-independent. Posterior polymorphous corneal dystrophy (PPCD), associated with ZEB1 insufficiency, provides a new biological context in which to understand and evaluate the classic EMT/MET paradigm. PPCD is characterized by a cadherin-switch and transition to an epithelial-like transcriptomic and cellular phenotype, which we study in a cell-based model of PPCD generated using CRISPR-Cas9-mediated ZEB1 knockout in corneal endothelial cells (CEnCs). Transcriptomic and functional studies support the hypothesis that CEnC undergo an MET-like transition in PPCD, termed endothelial to epithelial transition (EnET), and lead to the conclusion that EnET may be considered a corollary to the classic EMT/MET paradigm.

2019-06-13 | GSE121680 | GEO

Expression data from Zeb1 knockdown NM18 cells

Project description:Differentiation of epithelial cells is strongly affected by transcription factors related to epithelial to mesenchymal-like progression. We used gene expression profiling to identify genes that are differentially regulated upon repression of the transcription factor Zeb1 (deltaEF1/Areb6). NM18 cells were transfected with non-silencing siRNA (ns-siRNA) or siRNA targeting Zeb1 (Zeb1 siRNA) for 48h. Experiments were performed as independent biological triplicate. Three non-silencing siRNA samples (GSM1322708, GSM1322709, and GSM1322710) were originally deposited in Series GSE54715. The samples were reanalyzed with the Zeb1 siRNA samples and the data is linked at the bottom of the Series record.

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Gene expression analysis of Panc1 pancreatic cancer cells with shRNA mediated control (GFP) or ZEB1 knockdown

Project description:Epithelial-to-mesenchymal transition (EMT) is a fundamental process in development and disease. If aberrantly activated it is a trigger for tumour progression and metastasis (Thiery et al 2009 Cell). It is now known that EMT activation is also associated with the maintenance of stem-cell properties (Mani et al. 2008 Cell). Since Zinc-finger enhancer binding transcription factor 1 (ZEB1) is a crucial EMT activator, we analyzed the changes in the gene expression profile that accompany shRNA mediated loss of ZEB1 in Panc1 pancreatic cancer cells. Panc1 is a cell line that exhibits relatively high ZEB1 levels and changes to a more benign phenotype upon ZEB1 knock down (Wellner et al. 2009 Nature Cell Biology). Panc1 cells were stably transfected with control (GFP) or ZEB1 shRNA. Upon puromycin selection, single cell clones were picked and characterized. Cells from two control versus two ZEB1 knockdown clones were harvested, total RNA was isolated and processed to hybridization.

2016-06-15 | E-MTAB-3483 | biostudies-arrayexpress

Endothelin2 signaling in the neural retina promotes the endothelial tip cell state and inhibits angiogenesis

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2014-01-01 | E-GEOD-50059 | biostudies-arrayexpress

RNA-seq from ZEB1 Knockdown and Control CD8+cDC1

Project description:RNA-seq from ZEB1 Knockdown and Control CD8+cDC1

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