Comprehensive single-cell atlas of the mouse retina.

TitleComprehensive single-cell atlas of the mouse retina.
Publication TypeJournal Article
Year of Publication2024
AuthorsLi, J, Choi, J, Cheng, X, Ma, J, Pema, S, Sanes, JR, Mardon, G, Frankfort, BJ, Tran, NM, Li, Y, Chen, R
Date Published2024 Jun 21

Single-cell RNA sequencing (scRNA-seq) has advanced our understanding of cellular heterogeneity by characterizing cell types across tissues and species. While several mouse retinal scRNA-seq datasets exist, each dataset is either limited in cell numbers or focused on specific cell classes, thereby hindering comprehensive gene expression analysis across all retina types. To fill the gap, we generated the largest retinal scRNA-seq dataset to date, comprising approximately 190,000 single cells from C57BL/6J mouse retinas, enriched for rare population cells via antibody-based magnetic cell sorting. Integrating this dataset with public datasets, we constructed the Mouse Retina Cell Atlas (MRCA) for wild-type mice, encompassing over 330,000 cells, characterizing 12 major classes and 138 cell types. The MRCA consolidates existing knowledge, identifies new cell types, and is publicly accessible via CELLxGENE, UCSC Cell Browser, and the Broad Single Cell Portal, providing a user-friendly resource for the mouse retina research community.

Alternate JournaliScience
PubMed ID38812536
PubMed Central IDPMC11134544
Grant ListR00 EY029360 / EY / NEI NIH HHS / United States
R01 EY018571 / EY / NEI NIH HHS / United States
R01 EY022356 / EY / NEI NIH HHS / United States
S10 OD032189 / OD / NIH HHS / United States