Single-nuclei RNA-seq on human retinal tissue provides improved transcriptome profiling.

TitleSingle-nuclei RNA-seq on human retinal tissue provides improved transcriptome profiling.
Publication TypeJournal Article
Year of Publication2019
AuthorsLiang, Q, Dharmat, R, Owen, L, Shakoor, A, Li, Y, Kim, S, Vitale, A, Kim, I, Morgan, D, Liang, S, Wu, N, Chen, K, DeAngelis, MM, Chen, R
JournalNat Commun
Date Published2019 Dec 17
KeywordsAged, Aged, 80 and over, Cell Nucleus, Female, Frozen Sections, Gene Expression Profiling, Healthy Volunteers, Humans, Male, Photoreceptor Cells, RNA-Seq, Single-Cell Analysis

Single-cell RNA-seq is a powerful tool in decoding the heterogeneity in complex tissues by generating transcriptomic profiles of the individual cell. Here, we report a single-nuclei RNA-seq (snRNA-seq) transcriptomic study on human retinal tissue, which is composed of multiple cell types with distinct functions. Six samples from three healthy donors are profiled and high-quality RNA-seq data is obtained for 5873 single nuclei. All major retinal cell types are observed and marker genes for each cell type are identified. The gene expression of the macular and peripheral retina is compared to each other at cell-type level. Furthermore, our dataset shows an improved power for prioritizing genes associated with human retinal diseases compared to both mouse single-cell RNA-seq and human bulk RNA-seq results. In conclusion, we demonstrate that obtaining single cell transcriptomes from human frozen tissues can provide insight missed by either human bulk RNA-seq or animal models.

Alternate JournalNat Commun
PubMed ID31848347
PubMed Central IDPMC6917696
Grant ListS10 OD018033 / OD / NIH HHS / United States
P30 CA016672 / CA / NCI NIH HHS / United States
R01EY018571 / / U.S. Department of Health & Human Services | NIH | National Eye Institute (NEI) / International
S10 OD023469 / OD / NIH HHS / United States
R01 EY022356 / EY / NEI NIH HHS / United States
P30 EY002520 / EY / NEI NIH HHS / United States
R01 EY018571 / EY / NEI NIH HHS / United States

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