Fig. 2: Reduced Usp18 expression results in loss of niche resident LSCs.
From: Expansion of interferon inducible gene pool via USP18 inhibition promotes cancer cell pyroptosis
a Single cell RNA-seq experimental design. GFP+Lin−c-Kit+ cells from Usp18+/f and Usp18+/Δ AE9a recipient mice (Usp18+/f n = 3 mice, Usp18+/Δ n = 3 mice) were sorted and pooled, and then scRNA-seq was performed. b UMAP of sorted GFP+Lin−c-Kit+ cells from Usp18+/f and Usp18+/Δ AE9a recipient mice. Allows indicate the clusters that significantly changed by Usp18 depletion. Arrows indicate clusters 8, 9, and 11. c Reactome analyses for feature genes of clusters 8, 9, and 11. d Reactome analysis for differentially expressed genes (DEG) in cluster 9. e Expression heat map for LSC feature and endothelial marker genes across all clusters from (b). f Frequencies of immature cells (HSCP/MPP, Multi-lin1, and Multi-lin2) in clusters with cell numbers >10, as defined by cellHarmony cell profiling analysis. Arrow indicates cluster 9. g Violin plots for Itga4 and Itgb1 in all clusters. Arrow indicate cluster 9. h Sub-clustering of VLA-4 expressing AML cells. VLA-4 high cells were mapped (top panel). Cluster 9 cells were then sub-clustered by Usp18+/f or Usp18+/Δ (bottom panel). p-values for reactome analysis in (c, d) were determined by two-sided binomial test adjusted with Benjamini–Hochberg approach. Source data are provided as a Source Data file.
