Extended Data Fig. 3: The bimodality of iCMS subtypes. | Nature Genetics

Extended Data Fig. 3: The bimodality of iCMS subtypes.

From: Single-cell and bulk transcriptome sequencing identifies two epithelial tumor cell states and refines the consensus molecular classification of colorectal cancer

Extended Data Fig. 3

a. Density plot of 42,010 tumor epithelial cells from 5 cohorts in iCMS metagene space. The mode at the bottom right of the scatterplot corresponds to iCMS2 cells, while the opposite mode corresponds to iCMS3. b. UMAP visualization of 42,010 tumor epithelial cells from 5 cohorts in transcriptomic space colored by iCMS score for each individual cell, defined as (iCMS2 metagene expression score) - (iCMS3 metagene expression score). c. UMAP visualization of tumor epithelial cells from 5 cohorts in transcriptomic space, grouped by patients, and colored by iCMS label. The numbers next to patient ID in each plot indicates the total number of tumor epithelial cells for that particular patient. The percentage on the bottom right of the UMAP indicates the number of cells that were clustered in i2 clusters (purple color) or i3 clusters (orange color).

Back to article page