Fig. 3

Transcriptomic and epigenomic alterations in candidate pathways of carboplatin–paclitaxel response. a Representative molecular pathways altered on both transcriptomic and epigenomic levels, visualized through circlize R package. Genes from the leading edge in each pathway are represented as differentially expressed (pink), methylated (gray) and both differentially expressed and methylated (yellow). Width of each connecting line is proportional to the extent of differential expression and differential methylation. Pathways are depicting as follows: chemokine receptors bind chemokines pathway (19 differentially expressed genes, four differentially methylated genes, and eight differentially expressed and methylated genes); mRNA splicing pathway (21 differentially expressed genes, 39 differentially methylated genes, and 28 differentially expressed and methylated genes); and G alpha (s) signaling events pathway (37 differentially expressed genes, eight differentially methylated genes, and four differentially expressed and methylated genes). b In the seven candidate pathway network representation, nodes correspond to the genes, which are connected to central pathway-membership circles (i.e., indicating pathway membership). Gene colors describe differential expression (pink), differential methylation (grey) and both differential expression and methylation (yellow). Network was constructed with ggnetwork R package