The survival and proper function of the neural retina depend on the support of two underlying tissues: the retinal pigment epithelium (RPE) and the choroid. Dysfunction in the RPE and choroid can lead to a range of inherited and complex diseases. To better characterize the cellular, transcriptomic, and epigenomic heterogeneity and dynamics within the RPE and choroid, we conducted single-cell and single-nucleus RNA sequencing (sc/snRNA-seq) as well as single-nucleus ATAC sequencing (snATAC-seq) on donor tissue samples. By integrating newly generated and previously published datasets, we developed version 1 of the human RPE and choroid cell atlas. This atlas includes scRNA-seq data from 205,925 cells from 67 donors and snRNA-seq data from 742,625 nuclei from 54 donors. Additionally, we incorporated snRNA-seq data from 136,555 nuclei from developmental RPE/choroid tissues spanning post-conception weeks (PCW) 10-23. This comprehensive dataset enabled the identification of 15 major cell classes, which were further subdivided into 25 cell types. Additionally, open chromatin profiling was performed on over 234,007 nuclei using snATAC-seq, providing an in-depth characterization of chromatin accessibility for each cell type. As part of the Human Cell Atlas project, this resource lays a robust foundation for advancing research into the biology of the RPE and choroid and the diseases associated with these tissues.
We identified 15 cell types of stromal cell from 212,984 snRNA-seq cells derived from human choroid.
We identified 5 cell types of retinal pigment epithelial cell from 69,244 snRNA-seq cells derived from posterior segment of human eye.
We identified 5 cell types of endothelial cell from 99,457 snRNA-seq cells derived from human choroid.
This atlas is an integrated collection of over 182K cells, derived from single-cell RNA-seq data of the human retinal pigment epithelium and the choroid. These cells have been categorized into 15 major classes and 27 sub-classes.
This atlas is an integrated collection of over 850K cells, derived from single-nucleus RNA-seq data of the human retinal pigment epithelium and the choroid. These cells have been categorized into 17 major classes and 36 sub-classes.
