Figure 4

Compare cell type proportion estimates from colon cancer samples The top row illustrates the consistency (in terms of correlation and RMSE) between cell type proportion estimates from methylation data (by multiple methods) and gene expression data (by CIBERSORTx). The middle row displays the estimation result for B cells, an example where cell type proportion estimates from DNA methylation and gene expression are highly consistent. Each point corresponds to one tumor sample and it is colored by tumor purity (eta). The bottom row shows the results for natural killer cell, an example where cell type proportion estimates from DNA methylation and gene expression have very low correlations. These plots were generated using ggplot2 version 3.3.1²⁴.