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. Author manuscript; available in PMC: 2018 Jun 1.
Published in final edited form as: Am J Med Genet B Neuropsychiatr Genet. 2017 Apr 26;174(4):413–426. doi: 10.1002/ajmg.b.32530

Table 4.

Most significant SNPs associated with GDS.

GDS continuous
Chr. SNP ID BP Genes A1 A2 OR STAT P MAF
White Black All
14 rs11157436 21706714 TRAα T C 0.155 5.274 1.64×10−7 0.212 0.083 0.155
19 rs12460243 8037240 CCL25, FBN3 A G 0.166 5.115 3.73×10−7 0.164 0.046 0.105
14 rs12437004 21687255 TRAα A C 0.12 5.083 4.41×10−7 0.254 0.176 0.22
14 rs1076546 21696788 TRAα T A 0.12 4.984 7.31×10−7 0.257 0.162 0.215
3 rs17038463 1400168 CNTN6 G T 0.173 4.901 1.11×10−6 0.058 0.114 0.085
19 rs17160128 8038698 CCL25, FBN3 G A 0.162 4.892 1.16×10−6 0.162 0.036 0.1
18 rs978490 40178035 - A G 0.168 4.782 1.99×10−6 0.148 0.044 0.094
1 rs829418 21816091 RAP1GAP A G 0.159 4.734 2.51×10−6 0.106 0.083 0.093
14 rs2293731 21686674 TRAα G C 0.139 4.706 2.88×10−6 0.21 0.082 0.153
8 rs17154702 8647290 - A G −0.118 −4.701 2.94×10−6 0.26 0.169 0.2
GDS binary
Chr. SNP ID BP Genes A1 A2 OR STAT P MAF
White Black All
2 rs6542826 109416151 SH3RF3 G A 1.703 4.949 7.47×10−7 0.632 0.278 0.468
2 rs11681615 109446413 SH3RF3 C T 1.659 4.848 1.25×10−6 0.576 0.256 0.43
2 rs6723162 70955794 - A T 0.605 −4.828 1.38×10−6 0.411 0.268 0.338
3 rs9814567 135701247 ANAPC13, CEP63 T C 0.592 −4.802 1.57×10−6 0.339 0.34 0.327
13 rs4772857 106615670 FAM155A G A 1.604 4.751 2.03×10−6 0.45 0.503 0.476
12 rs795943 77187598 - A G 0.589 −4.651 3.30×10−6 0.194 0.609 0.398
8 rs876084 121170703 - C T 0.635 −4.568 4.93×10−6 0.611 0.361 0.493
3 rs11915964 135831620 KY G T 0.621 −4.536 5.73×10−6 0.351 0.387 0.355
8 rs2915495 52442292 PXDNL A G 1.698 4.478 7.52×10−6 0.157 0.354 0.254
8 rs7840128 3665395 CSMD1 A T 2.17 4.461 8.15×10−6 0.028 0.146 0.084

Abbreviations: Chr., chromosome; BP, physical position (base-pair); genes, lists of genes located within 20kb upstream or downstream of the SNP (if there were multiple genes, they are all listed and separated by a comma; if there was no gene available within 20kb of the SNP, we used “-” to indicate such cases); A1, Allele 1 code (minor allele); A2, Allele 2 code (major allele); BETA/OR, regression coefficient (linear) or odds ratio (logistic); STAT, coefficient t-statistic; MAF, minor allele frequency.