Table 1.
Summary of gene-centric analysis results for different phenotypic neuroblastomas.
Figure 1.
Manhattan plot of single marker analysis of the low-risk neuroblastoma data set.
Even though the genes DDX4 and IL31RA do not contain significantly associated SNPs (P = 1.0×10−07), the combined effect of moderately associated SNPs drives these two genes to be significant in our gene-centric analysis (genome-wide gene centric threshold p-values for significance is P<3.15×10−6).
Figure 2.
Haplotype view of the 4 genes significantly associated with low-risk neuroblastoma.
Red line indicates P<1.0×10−7. Only DUSP12 and HSD17B12 contain SNPs with significant single-marker p-values in neuroblastoma low-risk subset. While DDX4 and IL31RA do not contain significant SNPs, our gene-centric method was able to detect these genes as associated with low-risk neuroblastoma.
Table 2.
Additional summaries of gene-centric analysis results for low-risk neuroblastoma.
Table 3.
Estimates of low-risk neuroblastoma odd ratios by genotype between the most significant SNPs.
Table 4.
Single SNP replication results in Italian cohort (n = 115 low-risk neuroblastoma and 680 controls).
Table 5.
Summary of gene set analysis results for all, high-risk, and low-risk neuroblastoma.