Fig. 4. SOX4 is required for maintaining a progenitor cell cycle program.

A UMAP projections of single cell RNA-sequencing analyses of control and SOX4^KO organoids color-coded for organoid line of origin. B UMAP projections of single cell RNA-sequencing analyses color-coded for clusters. C Heatmap depicting distance between clusters. D Gene Set Enrichment Analyses comparing genes specifically upregulated in the 5 clusters to genes specific to fMaSC [29]. E Top10 cell types exhibiting significant enrichment for genes specifically upregulated in cluster 3 (compared to all other clusters) as determined by Toppcell Atlas. F GO-term analysis of genes upregulated in cluster 3 compared to other clusters. G UMAP projections of single cell RNA-sequencing analyses color-coded for cell cycle phase classification. H Cell cycle phase classification quantified per cluster. I GSEA comparing genes ranked on their degree of co-expression with SOX4 in the TCGA and METABRIC datasets (Supplementary Table 6) to genes upregulated in cluster 3.