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Fig. 5 | Genome Biology

Fig. 5

From: Systematic evaluation of colorectal cancer organoid system by single-cell RNA-Seq analysis

Fig. 5

Culture medium exchange does not influence CA2 and OLFM4 expression patterns. A Schematic workflow of culture medium exchange for patient #4. Scatterplot showing the expression pattern of the enterocyte marker CA2 and pluripotency cell marker OLFM4 in each individual cell. Organoid cells of patient #4 were established in conditioned medium, after culture for 5 passages (P5), transfer to chemical-defined medium, or still stay in conditioned medium for 9 days and P7 cells were collected and performed scRNA-seq. “P” stands for passage. B Schematic workflow of culture medium exchange for patient #7. Scatterplot showing the expression pattern of the enterocyte marker CA2 and pluripotency cell marker OLFM4 in each individual cell. Organoid cells of patient #7 were established in chemical-defined medium, and P4 cells were transferred to conditioned medium cultured for 25 days and P11 cells were collected and performed scRNA-seq. “P” stands for passage. C Heatmap showing the expression patterns of selected genes in patient #4. In vivo tumor-specific genes: DPEP1, CEACAM6, and TGFBI. Intestinal subtype specific genes: LGR5, SOX9, MKI67, OLFM4, CA1, REG4, SPINK4, MUC2, and CA2. Colors from blue to red represent low to high expression levels. D Heatmap showing mitochondrial mutations of patient #4. Red represents mutant site, blue represents wild type, and gray represents site with reads lower than 9. Chem, chemical-defined medium; Cond, conditioned medium. E Heatmap showing the expression patterns of selected genes in patient #7. Colors from blue to red represent low to high expression levels. F Heatmap showing mitochondrial mutation of patient #7. Red represents mutant site, blue represents wild type, and gray represents site with reads lower than 9. Chem, chemical-defined medium; Cond, conditioned medium

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