Fig. 6

Stromal status disparities in different histologic subtypes. A. Cluster-colored UMAP plot of all fibroblasts. B. Boxplot showing cellular fractions of each fibroblast cluster in normal (n = 5), acinar (n = 4) and solid (n = 4) samples. Box centerlines, median; box limits, the 25th and 75th percentiles; box whiskers, 1.5 × the interquartile range. Line segments of different lengths indicate which two groups were compared. Two-sided Wilcoxon rank-sum test. C. Heatmap of normalized expression of fibroblast marker genes among clusters. D. Volcano plot showing the upregulated genes in solid LUAD-derived fibroblasts. E–F. Violin and box plots of fibrillar collagens (E) and EMT (F) signature scores for fibroblasts in the three subgroups. Comparisons were conducted using two-sided Wilcoxon rank-sum test. G. Cluster-colored UMAP plot of all endothelial cells. H. Boxplot showing cellular fractions of each endothelium cluster in normal (n = 5), acinar (n = 4) and solid (n = 4) samples. Box centerlines, median; box limits, the 25th and 75th percentiles; box whiskers, 1.5 × the interquartile range. Line segments of different lengths indicate which two groups were compared. Two-sided Wilcoxon rank-sum test. I. Heatmap of normalized expression of endothelial marker genes among clusters. J. Differentially enriched KEGG pathways between tumor endothelial cells from solid and acinar samples revealed by GSVA. K. Violin plots showing the expression of selected MHC molecules in endothelial cells