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. Author manuscript; available in PMC: 2022 Mar 1.
Published in final edited form as: Eur Urol. 2020 Aug 14;79(3):353–361. doi: 10.1016/j.eururo.2020.07.038

Table 2 –

All cases and familial cases: stage-two single-variant analyses that detected significant associations, illustrating the gene and summary statistics for variants

Genea rsID Allele All cases (N = 2817) vs controls (N = 1899) PRACTICALb Familial cases (N = 1993) vs controls (N = 1899) ALT allele frequencies
REF ALT OR 95% CI p value OR p value OR 95% CI p value All cases Familial cases Controls
HNF1B rs3216929 G GCAGA 0.74 0.68, 0.81 1.13E-10 0.85 1.55E-81 0.74 0.67, 0.82 1.52E-09 0.3145 0.3084 0.3775
HOXB13 rs138213197 C T 21.01 6.58, 67.15 2.78E-07 3.85 9.17E-63 22.44 6.99, 71.97 1.69E-07 0.0135 0.0161 0.0008
KLK3 rs17632542 T C 0.72 0.61, 0.86 1.70E-04 0.74 6.69E-81 0.61 0.50, 0.74 5.96E-07 0.0591 0.0489 0.0777
MSMB (56 bp) rs10993994 A G 0.74 0.68, 0.80 4.41E-12 0.81 2.29E-147 0.71 0.65, 0.78 1.46E-12 0.5329 0.5258 0.6124
MSMB (238 bp) rs12770171 G A 1.38 1.24, 1.54 4.05E-09 1.18 3.71E-58 1.46 1.30, 1.63 1.23E-10 0.2384 0.2481 0.1854
PCAT1 rs1551515 T A 0.82 0.75, 0.90 3.93E-05 0.88 1.55E-48 0.77 0.70, 0.86 7.67E-07 0.2691 0.2561 0.3099
rs1551513 T C 0.82 0.75, 0.90 3.31E-05 0.88 1.17E-48 0.77 0.70, 0.85 6.53E-07 0.2691 0.2561 0.3104
rs4473999 C T 0.82 0.75, 0.90 3.93E-05 0.88 2.16E-48 0.77 0.70, 0.86 7.67E-07 0.2691 0.2561 0.3099
rs9656964 C G 0.82 0.75, 0.90 3.93E-05 0.88 2.80E-48 0.77 0.70, 0.86 7.67E-07 0.2691 0.2561 0.3099
rs17762938 T C 0.82 0.75, 0.90 3.31E-05 0.88 3.42E-48 0.77 0.70, 0.85 6.53E-07 0.2691 0.2561 0.3104
rs7823297 C T 0.82 0.75, 0.90 3.31-05 0.88 2.12E-48 0.77 0.70, 0.85 6.53E-07 0.2691 0.2561 0.3104
rs6651240 A T 0.82 0.75, 0.90 4.44E-05 0.88 1.62E-48 0.77 0.70, 0.86 9.02E-07 0.2691 0.2561 0.3096
PCAT1 (135 bp) rs4573233 G A 0.82 0.75, 0.90 3.93E-05 0.88 1.65E-48 0.77 0.70, 0.86 7.67E-07 0.2691 0.2561 0.3099
TERT (909 bp) rs7712562 A G 1.35 1.20, 1.53 1.40E-06 1.18 2.24E-48 1.47 1.29, 1.69 2.45E-08 0.8768 0.8861 0.8420
ULK4 rs202114865 G A 0.62 0.52, 0.75 2.81E-07 NA NA 0.80 0.66, 0.96 0.02 0.0502 0.0686 0.0796

CI = confidence interval; NA = genetic variants from this current study were not genotyped in PRACTICAL; OR = odds ratio.

a

Variants outside a gene have their base-pair distance to the nearest gene in parentheses, based on Genome Reference Consortium Human Build 38.

b

PRACTICAL OR and p value provided by the Prostate Cancer Association Group to Investigate Cancer Associated Alterations in the Genome (PRACTICAL) consortium, based on genome-wide analyses of >140 000 men [19].