Concerted changes in transcriptional regulation of genes involved in DNA methylation, demethylation, and folate-mediated one-carbon metabolism pathways in the NCI-60 cancer cell line panel in response to cancer drug treatment.

Interestingly, while DGIdb and PharmGKB reported interactions with paclitaxel and cisplatin for MTHFR encoding 5, 10-methylenetetrahydrofolate reductase that catalyzes one of the central OCM pathway reactions (Additional file 1 : Table S1) [ 14 , 18 ], its expression did not satisfy the criteria for concerted changes after treatment with any of the five agents (Table 1 ), although it showed a trend for upregulation at 2 h after treatment with the high concentration of paclitaxel (data not shown).

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Interestingly, while DNMT3A did not satisfy the criterion for concerted expression changes, it showed a strong trend for upregulation in the majority of the cell lines at 24 h (data not shown), suggesting that it may be considered as a potential target for combination therapy with doxorubicin and an additional agent targeting this specific DNA methyltransferase.

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