Table 2 Gene-based rare variant analysis results using SKAT-O.

From: An exome-wide rare variant analysis of Korean men identifies three novel genes predisposing to prostate cancer

Gene

Chr: Build 38 position

# variants

cMAF

cMAF Case

cMAF Control

SKAT-O p-value

FDR q-value

CDYL2

16: 80597899-80805043

2

0.00055

0.00050

0.00056

5.39E-06

0.0277

MST1R

3: 49886471-49903637

5

0.01707

0.02066

0.01651

1.70E-05

0.0277

ENTPD3-AS1

3: 40390951-40453308

2

0.00034

0.00101

0.00024

1.89E-05

0.0277

GPER1

7: 1086807-1093815

2

0.02891

0.03175

0.02846

2.23E-05

0.0277

LOC102724438

3: 49899191-49925038

2

0.00296

0.00554

0.00255

2.45E-05

0.0277

SPATA3

2: 230996124-231019939

2

0.00372

0.00706

0.00319

2.85E-05

0.0277

PARD3B

2: 204545793-205620162

6

0.04163

0.04234

0.04154

5.76E-05

0.0480

  1. Chr: Chromosome; cMAF: cumulative minor allele frequency of all variants included in the gene/bin;
  2. Seven genes significantly associated with prostate cancer after adjusting the SKAT-O p-value for multiple tests.
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