Table 1 aLIT and Marginal (SQ/CP) significance results of the lead SNPs from the UK Biobank analysis. There are two other p-values reported to help assess statistical significance in aLIT: (i) accounting for significant SNPs in linkage disequilibrium with the lead SNP (labeled “LD”) and (ii) removing dominance and/or scaling effects (labeled “Dom.”)

16

FTO

rs11642015

0.402

\(1.08\times 10^{-46}\)

\(2.73\times 10^{-40}\)

\(1.23\times 10^{-46}\)

\(1.28\times 10^{-46}\)

2

COBLL1

rs5835988

0.406

\(5.30\times 10^{-14}\)

\(1.08\times 10^{-9}\)

\(1.29\times 10^{-13}\)

\(5.32\times 10^{-14}\)

1

LYPLAL1

rs2820444

0.299

\(1.17\times 10^{-13}\)

\(2.64\times 10^{-13}\)

\(1.27\times 10^{-13}\)

\(1.19\times 10 ^{-13}\)

6

PRSS16

rs13212921

0.136

\(1.78\times 10^{-13}\)

\(3.40\times 10^{-12}\)

\(1.90\times 10^{-12}\)

\(4.85\times 10^{-9}\)

18

MC4R

rs35614134

0.234

\(3.95\times 10^{-12}\)

\(9.34\times 10^{-12}\)

\(1.39\times 10^{-11}\)

\(3.97\times 10^{-12}\)

1

ATP2B4

rs2821230

0.474

\(9.45\times 10^{-11}\)

\(1.19\times 10^{-5}\)

\(1.02\times 10^{-10}\)

\(9.38\times 10 ^{-11}\)

7

KLF14

rs972284

0.389

\(1.43 \times 10^{-10}\)

\(2.43\times 10^{-9}\)

\(1.25\times 10^{-10}\)

\(1.43\times 10^{-10}\)

11

LIN7C

rs11030066

0.143

\(6.38 \times 10^{-10}\)

\(5.03\times 10^{-6}\)

\(6.97\times 10^{-10}\)

\(6.62\times 10^{-10}\)

6

ILRUN

rs9469860

0.146

\(1.01\times 10^{-9}\)

\(4.47\times 10^{-9}\)

\(7.72\times 10^{-9}\)

\(3.62\times 10^{-7}\)

12

FAIM2

rs7132908

0.384

\(8.85\times 10^{-9}\)

\(4.22\times 10^{-9}\)

\(8.49\times 10^{-9}\)

\(8.96\times 10^{-9}\)

5

MAP3K1

rs157845

0.253

\(1.03\times 10^{-8}\)

\(2.39\times 10^{-4}\)

\(1.30\times 10^{-8}\)

\(1.03\times 10^{-8}\)