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. Author manuscript; available in PMC: 2013 Mar 1.
Published in final edited form as: Ann Hum Genet. 2012 Jan 9;76(2):121–127. doi: 10.1111/j.1469-1809.2011.00698.x

Table 1.

Summary of the significant SNPs and their regions

Significant Region Most significant (index) SNP of the region
Chr Start End Gene(s) rs ID Position A1 A2 MAF CEU MAF P-value Eff-All Eff-M Eff-F
4 9401384 10050458 SLC2A9, WDR1 rs13129697 9536065 T G 0.36 0.29 2.33×10−19 −28.99 −19.58 −35.76
5 8654931 8780372 SEMA5A (downstream) rs200113 8705870 T C 0.1 0.17 7.02×10−08 28.59 33.34 23.59
2 628483 730659 TMEM18 rs12999373 653483 G A 0.27 0.22 1.79×10−06 −17.65 −11.67 −21.26
15 43262339 43621220 SLC28A2 rs765787 43287339 A G 0.15 0.16 2.81×10−06 20.9 26.93 14.45
5 1.67E+08 1.67E+08 ODZ2 rs13358864 1.67E+08 T A 0.1 0.13 4.68×10−06 −24.09 −24.25 −22.8
4 89151747 89313430 ABCG2 rs2231142 89271347 G T 0.08 0.11 5.14×10−06 27.4 31.11 22.97

Note: Position is based on NCBI Genome Build 36; A1 and A2 are the major and minor alleles respectively; Eff-All, Eff-M, Eff-F are effect sizes (μmol/L) of the minor alleles in total, male and female samples. A significant region was selected starting with an “index” SNP (P < 5×10−6) and was progressively extended to adjacent (<50kb) significant SNPs (P < 5×10−3). The ABCG2 region was included in the table although the P-value of the index SNP (rs2231142, 5.14×10−06), a non-synonymous variant, did not strictly reach the standard threshold (P < 5×10−6).