Effects of knockdown or overexpression of PNPLA6 in human retinal pigment epithelial cell line ARPE-19
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PROVIDER: PRJNA1066214 | ENA |
REPOSITORIES: ENA
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Project description:The purpose of this study is to determine the changes in gene expression by a human retinal pigment epithelium (RPE) cell line (ARPE-19) in response to combination treatment of TGF and TNF, which induces phenotypic changes in vitro that mimic the EMT (Epithelial-to-Mesenchymal Transition). For this purpose, total RNA was extracted from TGF and TNF-treated ARPE-19 cells and differential gene expression between each time point (0, 1, 6, 16, 24, 42, and 60 hours) was determined using genechip arrays (Affymetrix, Human Genome U133). Experiment Overall Design: ARPE19 cell lines treated with TGF and TNF for 0, 1, 6, 16, 24, 42, and 60 hour. Each experiment were repeated three times. But 1 hour experiment was repeated two times.
2009-09-15 | E-GEOD-12548 | biostudies-arrayexpress
Project description:We have performed a proteomics analysis of a human retinal pigment epithelial cell line (ARPE-19), which represents a widely used model for in vitro studies of cellular and molecular mechanisms related to human RPE cells. The project was jointly supervised by <b>Francesco Giorgianni</b> and <b>Sarka Beranova-Giorgianni</b>.
2018-04-26 | PXD009607 | Pride
Project description:We inoculated ARPE-19 human retinal pigment epithelial cells with EBOV, and followed course of infection by immunocytochemistry and measurement of titer in culture supernatant. To interrogate transcriptional responses of infected cells, we combined RNA sequencing with in silico pathway, gene ontology, transcription factor binding site and network analyses. Human retinal pigment epithelial cells were permissive to infection with EBOV, and supported viral replication and release of virus in high titer. Unexpectedly, 28% of 560 up-regulated transcripts in EBOV-infected cells were type I IFN responsive, indicating a robust type I IFN response.
2017-07-06 | GSE100839 | GEO
Project description:Although mutations in human patatin-like phospholipase PNPLA6 are associated with hereditary retinal degenerative diseases, its mechanistic action in the retina is poorly understood. Here, we uncover the molecular mechanism by which PNPLA6 dysfunction disturbs retinal homeostasis and visual function. PNPLA6, by acting as a phospholipase B, regulates choline mobilization from phosphatidylcholine and subsequent choline turnover for phosphatidylcholine regeneration in retinal pigment epithelial (RPE) cells. PNPLA6-driven choline is supplied from RPE cells to adjacent photoreceptor cells to support their survival. Inhibition of this pathway results in abnormal morphology, proliferation, metabolism, and functions of RPE and photoreceptor cells, and mice with retina-specific PNPLA6 deletion exhibit retinitis pigmentosa-like retinal degeneration. Notably, these abnormalities are entirely rescued by choline supplementation. Thus, PNPLA6 plays an essential role in retinal homeostasis by controlling choline availability for phospholipid recycling and provide a framework for the development of a novel ophthalmic drug target for retinal degeneration.
2024-11-12 | GSE253526 | GEO
Project description:Overwhelming and persistent inflammation of retinal pigment epithelium (RPE) induces destructive changes in retinal environment by invoking immune activation. In this study, we aimed to investigate RPE-specific biological and metabolic response against intense inflammation, and identify molecular characteristics determining pathological progression. Here, we performed quantitative analyses of proteome and phosphoproteome of lipopolysaccharide (LPS)-stimulated human derived RPE cell line ARPE-19 using the latest isobaric TMT labeling approach coupled with high-resolution mass spectrometry.
2021-09-09 | PXD018257 | Pride
Project description:Overwhelming and persistent inflammation of retinal pigment epithelium (RPE) induces destructive changes in retinal environment by invoking immune activation. In this study, we aimed to investigate RPE-specific biological and metabolic response against intense inflammation, and identify molecular characteristics determining pathological progression. Here, we performed quantitative analyses of phosphoproteome of lipopolysaccharide (LPS)-stimulated human derived RPE cell line ARPE-19 using the latest isobaric TMT labeling approach coupled with high-resolution mass spectrometry.
2021-09-09 | PXD018260 | Pride
Project description:We performed a proteomic analysis of a retinal pigment epithelium cell line (ARPE-19) exposed to long-term sublethal levels of H2O2 to mimic low-level pro-oxidative insult in age-related macular degeneration (AMD). using a wide range of biochemical analyses and cell culture techniques, we highlighted changes in energy metabolism, extracellular matrix organization and inflammation-related processes, which may help in understanding the molecular pathogenesis of AMD.
2021-01-04 | PXD022545 | Pride
Project description:The retinal pigment epithelial (RPE) cell line ARPE-19 provides a widely-used alternative to native RPE. However, retention of the native RPE phenotype becomes problematic after multiple passages. We wished to determine if suitable culture conditions and differentiation could restore RPE-appropriate gene expression to ARPE-19. ARPE-19 cells at passages p9 to p12, grown in DMEM containing high glucose and pyruvate with 1% fetal bovine serum, were differentiated for up to 4 months. Using RNA-Seq, we compared the transcriptome of ARPE-19 cells kept in long-term culture with those cultured for 4 days. The 4 month cells developed the classic native RPE phenotype with heavy pigmentation. RNA-Seq analysis provided a comprehensive view of the relative abundance and differential expression of genes in the 4 month cells. Of the 16,757 genes with detectable signals, nearly 2435 genes were upregulated, and 931 genes were down-regulated with a fold change differences of 2 or more. Genes characteristic of RPE, including RPE65, RDH5 and RDH10, were greatly increased in ARPE-19 cells maintained at confluence for 4 months. Comparison with microarray data sets from human primary cell lines revealed important overall similarities in expression of "signature" genes. The results of this study demonstrate that ARPE-19 cells can express genes specific to native human RPE cells when appropriately cultured, and thus, can provide a relevant system to study differentiated cellular functions of RPE in vitro.
2017-04-12 | GSE88848 | GEO
Project description:Study the gene expression profiling of human retinal pigmented epithelium cell line ARPE-19 treated with or without human recombinant Cochlin protein for 24 hours.
2023-05-05 | E-MTAB-12364 | biostudies-arrayexpress
Project description:We performed RNA-Sequencing (RNA-Seq) of primary human retinal pigment epithelial cells and the ARPE-19 cell line 24 hours following infection with GT-1 strain T. gondii tachyzoites. Gene ontology and pathway enrichment analyses of differentially expressed total RNA identified a strong immunologic transcriptomic signature. There were limited changes in the small RNA transcriptome. We used RT-qPCR for 26 immune response-related protein-coding and long non-coding transcripts in different primary epithelial cell isolates to confirm immunological activity of infected cells.
2019-06-04 | GSE132091 | GEO