Table 4.

Association results for the 12 SNPs in the replication and the combined studies

				Replication study				Combined results
Chromosome	Gene	SNP	Genetic Model*	Family history of PBT, n. genotype counts #		OR (95%CI) &	P-value &	OR (95%CI)	P-value	BDFP
				Yes (n=84)	No (n=903)					Prior 0.01	Prior 0.001
6p22.3	PRL	rs2064193	Dominant	67 | 17	710 | 192	0.85 (0.48–1.52)	0.59	1.47 (1.02–2.13)	0.03	0.98	0.99
	LOC389370	rs16886628	Dominant	79 | 5	824 | 77	0.77 (0.30–2.01)	0.60	1.60 (0.98–2.60)	0.04	0.98	0.99
12p13.33-12.1	PRMT8	rs17780102	Recessive	68 | 15	799 | 98	1.99 (1.06–3.76)	0.03	2.13 (1.41–3.21)	0.0001	0.48	0.90
	STYK1	rs2418087	Recessive	66 | 18	745 | 156	1.26 (0.71–2.25)	0.43	1.88 (1.30–2.71)	0.0003	0.64	0.95
	GRIN2B	rs7961199	Dominant	47 | 37	507 | 396	0.97 (0.61–1.55)	0.91	0.66 (0.47–0.93)	0.01	0.96	0.99
	SOX5	rs7305773	Recessive	81 | 3	883 | 17	2.99 (0.78–11.36)	0.09	3.53 (1.66–7.32)	0.0001	0.77	0.97
17q12-21.32	LOC728762	rs9303521	Recessive	69 | 15	705 | 196	0.85 (0.47–1.55)	0.60	1.41 (0.98–2.04)	0.05	0.97	0.99
	WNT9B	rs1530364	Recessive	80 | 4	839 | 62	0.58 (0.21–1.68)	0.31	2.09 (1.28–3.40)	0.0015	0.86	0.98
	SPOP	rs6504618	Dominant	15 | 69	256 | 645	1.95 (1.08–3.52)	0.02	2.01 (1.32–3.08)	0.0006	0.76	0.97
17q22-23.2	LOC729430	rs1879145	Dominant	34 | 50	338 | 565	0.87 (0.54–1.39)	0.55	1.38 (0.98–1.94)	0.05	0.98	0.99
	MSI2	rs868728	Recessive	82 | 2	880 | 23	0.79 (0.17–3.55)	0.76	2.86 (1.26–6.27)	0.004	0.95	0.99
18q23	NFATC1	rs7236492	Recessive	80 | 4	870 | 33	1.19 (0.4–3.56)	0.75	2.56 (1.27–5.04)	0.003	0.93	0.99

Note: PBT, primary brain tumor; OR, odds ratio; CI, confidence interval; BFDP, Bayesian false-discovery probability.

^*Under a fixed-effects genetic model for each SNP according to the discovery data set.

^#Genotype counts for Glioma cases with and without a family history of PBT.

^&Adjusted for age, sex, and histology.

^&Association at the 0.8 BFDP level are emboldened.