Dataset Information

Transcriptomic Responses of Human Retinal Vascular Endothelial Cells to Inflammatory Cytokines.

ABSTRACT:

Purpose

Molecular profiling of human retinal endothelial cells provides opportunities to understand the roles of this cell population in maintenance of the blood-ocular barrier, and its involvements in diverse retinal vasculopathies. We aimed to generate a transcriptome of human retinal endothelial cells in the unstimulated state, and following treatment with inflammatory cytokines linked to cell dysfunction.

Methods

Endothelial cells were isolated from retinae of five human cadaveric donors, and treated for 60 minutes and 24 hours with interleukin-1β or tumor necrosis factor-α, or exposed to medium alone for the same intervals. Expression of intercellular adhesion molecule-1 was measured by RT-qPCR to confirm cytokine-induced activation of the cells. RNA was sequenced on the Illumina NovaSeq 6000 platform. Reads were aligned to the human GRCh38 genome, and reads that aligned to Ensembl-annotated genes were counted. Quality control of sequencing was performed with FastQC, and sequences were classified by Kraken.

Results

A human retinal endothelial cell RNA-sequencing dataset with mean of 99% reads aligned to the human genome was produced as raw RNA sequence data (FASTQ files) and processed read data (XLSX files). Multidimensional scaling analysis showed a strong donor effect, which was readily controlled by ComBat.

Conclusions

Our dataset may be useful for human retinal endothelial cell transcriptomic assemblies, functional gene annotating and/or gene expression and enrichment analyses, as well as cross-dataset harmonization.

Translational relevance

The molecular profile of the human retinal endothelium is a source of candidate biologic targets for retinal vasculopathies.

SUBMITTER: Ryan FJ

PROVIDER: S-EPMC9428361 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature

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Publications

Transcriptomic Responses of Human Retinal Vascular Endothelial Cells to Inflammatory Cytokines.

Ryan Feargal J FJ Ma Yuefang Y Ashander Liam M LM Kvopka Michael M Appukuttan Binoy B Lynn David J DJ Smith Justine R JR

Translational vision science & technology 20220801 8

<h4>Purpose</h4>Molecular profiling of human retinal endothelial cells provides opportunities to understand the roles of this cell population in maintenance of the blood-ocular barrier, and its involvements in diverse retinal vasculopathies. We aimed to generate a transcriptome of human retinal endothelial cells in the unstimulated state, and following treatment with inflammatory cytokines linked to cell dysfunction.<h4>Methods</h4>Endothelial cells were isolated from retinae of five human cadav ...[more]

PMID: 36018584

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Dataset Information

Transcriptomic Responses of Human Retinal Vascular Endothelial Cells to Inflammatory Cytokines.

Purpose

Methods

Results

Conclusions

Translational relevance

Publications

Transcriptomic Responses of Human Retinal Vascular Endothelial Cells to Inflammatory Cytokines.

Similar Datasets

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