Extended Data Fig. 1: Oncofetal reprogramming during intestinal tumorigenesis.
From: Oncofetal reprogramming drives phenotypic plasticity in WNT-dependent colorectal cancer
a, Schematics of the genetic approach used to generate isogenic mouse organoid models mimicking the adenoma-to-adenocarcinoma sequence. b, UMAP of scRNA-seq of the indicated models. c, Cells from the neoplastic metacluster are indicated in green on the UMAP. d, Volcano plot of differentially expressed genes (DEGs) in the neoplastic metacluster vs. all other clusters. p-values calculated using DESeq2, Wald test (two-sided, unpaired); Benjamini-Hochberg adjustments. e, Venn diagram depicting the strategy used to define the mouse oncofetal (OnF) signature. f-h, UMAPs showing enrichment scores of enterocytes (f), stem cell (g) and OnF (h) signatures throughout CRC progression. i, Heatmap of SC and OnF module scores across cell clusters and genotypes. In panels b-c and f-h WT = 4058 cells; A = 5890 cells; AKSP 10946 cells. j, Relative Lgr5 expression along the SC-OnF continuum. k, Enrichment of the OnF and SC module scores across genotypes (n = 3 independent organoid cultures per group). boxplots: center line, median; box limits, interquartile range (IQR: 25th to 75th percentile); whiskers, ±1.5x IQR; individual points, outliers. p-values calculated using two-sided unpaired t-test. Illustrations in a created using BioRender.com.
