Skip to main content
. 2020 Feb 19;11:955. doi: 10.1038/s41467-020-14561-0

Fig. 1. Human and mouse liver scRNA-seq contains similar cell types.

Fig. 1

a Overview of the study design, which was to deconvolute the cellular composition of 28 GTEx tissues from 14 organs using mouse scRNA-seq to identify cell-type-associated eQTLs. We first conducted proof-of-concept analyses, where we compared cellular estimates of two proof-of-concept GTEx tissues (liver and skin) deconvoluted using both mouse and human signature genes obtained from scRNA-seq. We then performed cellular deconvolution of the 28 GTEx tissues from 14 organs using CIBERSORT and characterized both the heterogeneity in cellular composition between tissues and the heterogeneity in relative distributions of cell populations between RNA-seq samples from a given tissue. Finally, we used the cell type composition estimates as interaction terms for eQTL analyses to determine if we could detect cell-type-associated genetic associations. b UMAP plot of clustered scRNA-seq data from human liver. Each point represents a single cell and color coding of cell type populations are shown adjacent c. Similar cell types can be collapsed to single cell type classifications and are noted with colored, transparent shading f. c Bar plots showing the fraction of each cell type from human liver scRNA-seq data. Color-coding of cell types correspond to the colors of the single cells in b. d UMAP plot of clustered scRNA-seq data from mouse liver. Each point represents a single cell and color coding of cell type populations are shown adjacent e. Each cell type has a corresponding collapsed cell type in human liver and is noted with colored, transparent shading f. e Bar plots showing the fraction of each cell type from mouse liver scRNA-seq data. Color-coding of cell types correspond to the colors of the single cells in d. f showing the colors of collapsed similar cell types from human liver (transparent shading in UMAP b, d; Supplementary Table 2). All cell types from mouse liver have a corresponding collapsed cell type in human liver (hepatocyte, endothelial, macrophages, B cell, NK/NKT cell) and human liver also contains two additional cell types not present in mouse (cholangiocytes and hepatic stellate cells).