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. 2020 Jul 8;6(28):eaba1983. doi: 10.1126/sciadv.aba1983

Fig. 1. Profiling human lung heterogeneity with scRNA-seq.

Fig. 1

(A) Overview of experimental design. (i) Disease lung explants and unused donor lungs collected. (ii) Lungs dissociated to single-cell suspension. (iii) Droplet-based scRNA-seq library preparation (iv) sequencing. (v) Exploratory analysis. (vi) Spatial localization with IHC. (B) Uniform Manifold Approximation and Projection (UMAP) representation of 312,928 cells from 32 IPF, 18 COPD, and 28 control donor lungs; each dot represents a single cell, and cells are labeled as one of 38 discrete cell varieties. AT, alveolar type; cDC, classical dendritic cell; pDC, plasmacytoid dendritic cell; M, macrophage; NK, natural killer; ILC, innate lymphoid cell; PNEC, pulmonary neuroendocrine cell; SMC, smooth muscle cell; VE, vascular endothelial. (C) Heat map of marker genes for all 38 identified cell types, categorized into four broad cell categories. Each cell type is represented by the top five genes ranked by false discovery rate (FDR) adjusted P value of a Wilcoxon rank sum test between the average expression per subject value for each cell type against the other average subject expression of the other cell types in their respective grouping. Each column represents the average expression value for one subject, hierarchically grouped by disease status and cell type. Gene expression values are unity normalized from 0 to 1 across rows within each categorical cell type group.