Categorizing cells as ccRCC and non-ccRCC in PDOs. (A) UMAP plot of the ccRCC marker CA9 expression in cells across all PDOs, with darker colors indicating CA9 expression levels. (B) The graph shows the number of ccRCC and non-ccRCC cells in each PDO categorized based on their CA9 expression. (C) The heatmap shows the differential gene expression between ccRCC and non-ccRCC cells. (D) The proportion of expressed transcripts’ structural categories across ccRCC and non-ccRCC cells. (E) Overlap of novel isoforms unique to ccRCC cells only. (F) Overrepresentation hallmark analysis of genes expressing common novel transcripts explicitly in ccRCC cells.