Table 1

Proportion of 200 replicates identifying causal variants in traits Q1 and Q2

Trait

Gene

Variant

PoR for uncollapsed variants

PoR for collapsed variants

(MAF < 0.01 and nonsynonymous)


TR 10−2

TR 10−7

SLR 10−7

TR 10−2

TR 10−7

SLR 10−7


Q1

ARNT

C1S6533

0.245

0.005

0.045

0.31

0.02

0.045

KDR

C4S1877

0

0

0.255

0.16

0.005

0.055

C4S1884

0.16

0.015

0.065

0.2

0.01

0.065

C4S1889

0

0

0.255

0.025

0

0.01

FLT1

C13S431

0.475

0.095

0.12

0.495

0.08

0.12

C13S522

0.745

0.115

0.99

0.78

0.165

0.99

C13S523

1

0.72

1

1

0.72

1

C13S524

0.115

0.01

0.39

0.03

0

0.005

Average PoR

7.9 × 10−2

2.5 × 10−2

8.2 × 10−2

1.6 × 10−1

4.8 × 10−2

1.1 × 10−1


Q2

VNN1

C6S5380

0.42

0.01

0.03

0.415

0.025

0.03

Average PoR

2.2 × 10−2

6.3 × 10−4

4.9 × 10−4

7.2 × 10−2

2.7 × 10−3

1.8 × 10−3


TR, tiled regression. SLR, simple linear regression. PoR, proportion of 200 replicates. For the tiled regression, 10−2 and 10−7 are the critical values; for the simple linear regression, 10−7 is the significance level.

Sung et al. BMC Proceedings 2011 5(Suppl 9):S15   doi:10.1186/1753-6561-5-S9-S15

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