Fig. 2.

The scheme of the phylogenetic steps. 1) Construct the phylogenetic tree of the gene family based on the protein sequences; 2) Estimate the best evolutionary models between expression and methylation data based on the phylogenetic tree in control samples; 3) Generate the null distributions of the expression and methylation data for the gene family following the best evolutionary model; 4) Calculate the empirical p-values of the expression and methylation levels for each member of the gene family in patient samples and select the significant ones