Even though epidemiological studies revealed high prevalence of NUDT15 c.415C>T and TPMT*3C in Indian Paediatric ALL cohorts, we conducted a comprehensive in silico screening analysis to validate their predicted functional impact, systematically evaluated all other potentially relevant variants in these genes and confirm that these epidemiologically common variants are indeed the most functionally deleterious among all possible SNPs. This evidence concerns the gene NUDT15 and acute lymphoblastic leukemia.