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Activation of RXRα reprograms chromatin accessibility to protect against acute kidney injury [ChIP-seq]

ABSTRACT: Purpose: To explore whether the differences in chromatin occupancy of RXRα correlate with distinct gene expression in PTCs of MI and SI Methods: Proximal tubules were isolated for RXRα ChIP-seq Results: Using an optimized data analysis workflow, we mapped reads to the mouse genome (mm10). Conclusions: We mapped the chromatin occupancy of RXRα.

ORGANISM(S): Mus musculus

PROVIDER: GSE197813 | GEO | 2022/11/05

REPOSITORIES: GEO

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Activation of RXRα reprograms chromatin accessibility to protect against acute kidney injury [H3K27ac ChIP-seq]

Project description:Purpose: To explore the differences in H3K27ac distribution in PTCs after MI and SI Methods: Proximal tubules were isolated for H3K27ac ChIP-seq Results: Using an optimized data analysis workflow, we mapped reads to the mouse genome (mm10). Conclusions: We mapped the chromatin occupancy of H3K27ac.

2022-11-05 | GSE213526 | GEO

Activation of RXRα reprograms chromatin accessibility to protect against acute kidney injury [ATAC-seq]

Project description:Purpose: To explore the differences in chromatin openness of PTCs between MI and SI Methods: Kidney proximal tubules were isolated for ATAC-seq Results: Using an optimized data analysis workflow, we mapped reads to the mouse genome (mm10).

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Activation of RXRα reprograms chromatin accessibility to protect against acute kidney injury [RNA-seq]

Project description:Purpose: To explore whether the differences in chromatin openness correlate with distinct gene expression in PTCs of MI and SI Methods: Proximal tubules were isolated for RNA-seq Results: Using an optimized data analysis workflow, we mapped reads to the mouse genome (mm10). Approximately 2%-13% of the transcripts showed differential expression within the different groups, with a fold change >= 1.5 and p value <0.05.

2022-11-05 | GSE197812 | GEO

RNA-seq Facilitates Quantitative Analysis of Wild Type and RXRα-silenced HepG2-NTCP Cell Transcriptomes

Project description:The goals of this study are to check mRNA levels of genes and pathways regulated by RXRα knocking down, and figure out their influences to HBV infection. The mRNA profiles of wild-type (WT) and RXRα knockdown (RXRα-KD) HepG2-NTCP cells were generated by deep sequencing using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the gene level with TopHat followed by Cufflinks. Using an optimized data analysis workflow, we mapped about 40 million sequence reads per sample to the human genome. We find arachidonic acid synthesis, retinol metabolism pathways and serveral other genes are regulated by RXRα knockdown. We also revealed that reduced gene expression in arachidonic acid (AA)/eicosanoids biosynthesis pathways, in particular one of the AA synthases Phospholipase A2 Group IIA (PLA2G2A), is associated with increased HBV infection. Moreover, we also found exogenous treatment of AA inhibits HBV infection. These data implicate the participation of AA/eicosanoids biosynthesis pathways in the regulation of HBV infection, and point to a novel potential strategy for host-targeted therapies against HBV.

2017-12-21 | GSE108366 | GEO

Activation of RXRα reprograms chromatin accessibility to protect against acute kidney injury.

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

2022-11-05 | GSE197815 | GEO

CD3254-RXRα Axis Promotes Chemical Reprogramming via RNA Exosome-Mediated MMVL30 Degradation and Inflammation Suppression [RNA-seq]

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Effect of interfering Itgb6 gene expression on renal proximal tubular epithelial cells during hypoxia/reoxygenation injury

Project description:Integrin αvβ6 holds promise as a therapeutic target for organ fibrosis, yet targeted therapies are hampered by inflammatory-related side effects. Here, we revealed that upregulated αvβ6 in proximal tubule cells (PTCs) is remarkably positively correlated with renal inflammation both in CKD patients and in murine model of ischemia-reperfusion injury (IRI)-induced renal fibrosis. Knockout of αvβ6 significantly reduced the inflammatory response in IRI kidneys, especially the infiltration of pro-inflammatory macrophages. To delve deeper into the mechanism by which αvβ6 modulates inflammatory response, an unbiased RNA-sequencing of si-NC and si-Itgb6-transfected hypoxic TKPTS cells was performed.

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