Fig. 4

(A) shows the gene ontology results of genes whose expression and methylation are correlated. The gene ratio refers to the number of genes in that gene set annotated to the GO term divided by the total number of genes in the gene set. A higher gene ratio implies greater over-representation of genes to the particular GO term (B) Genes that were positively correlated with methylation were present more in transcription start sites or promoter regions whereas negatively correlated genes were more enriched in the gene bodies; 3’UTR: 3’ untranslated region, 5’UTR: 5’ untranslated region; TSS1500: 1500 bp upstream of transcription start site, TSS200: 200 bp upstream of transcription start site (C) Disease ontology of expression-methylation correlated genes shows that many of the differentially methylated genes are associated with kidney neoplasm and neoplasm invasiveness. (D) and (E) shows that a large number of these methylation-associated genes are tumour suppressor genes and oncogenes respectively.