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Table 2 Effect allele frequencies (EAF) of 39 obesity risk SNPs in continental groups

From: Population differentiation in allele frequencies of obesity-associated SNPs

SNP ID chr Positiona functionb Nearby / containing geneb Effect allelec Other allelec African EAF American EAF East Asian EAF European EAF South Asian EAF Global EAF GWAS p-value
rs1011731 1 172,346,548 intron DNM3 G A 0.90 0.36 0.13 0.42 0.43 0.48 1.0E-17
rs10146997 14 79,945,162 intron NRXN3 G A 0.41 0.20 0.00 0.21 0.11 0.20 5.0E-08
rs10150332 14 79,936,964 intron NRXN3 C T 0.44 0.20 0.00 0.21 0.11 0.21 3.0E-11
rs10182181 2 25,150,296 intergene ADCY3 - DNAJC27 G A 0.91 0.38 0.44 0.47 0.48 0.57 1.0E-17
rs10195252 2 165,513,091 intron LOC101929615 T C 0.20 0.74 0.90 0.56 0.79 0.60 2.0E-24
rs10261878 7 25,950,545 intergene UBA52P1 - MIR148A C A 0.34 0.89 0.96 0.94 0.96 0.78 1.0E-10
rs1055144 7 25,871,109 ncRNA LOC100506236 T C 0.04 0.16 0.43 0.21 0.46 0.25 1.0E-24
rs10767664 11 27,725,986 intron BDNF A T 0.95 0.83 0.51 0.77 0.70 0.76 5.0E-26
rs10838738 11 47,663,049 intron MTCH2 G A 0.05 0.40 0.28 0.35 0.33 0.26 5.0E-09
rs11030104 11 27,684,517 intron;intron BDNF, BDNF-AS A G 0.98 0.83 0.51 0.78 0.74 0.78 2.0E-20
rs11847697 14 30,515,112 intergene PRKD1 - RPS6P24 T C 0.41 0.05 0.00 0.05 0.11 0.15 6.0E-11
rs12229654 12 111,414,461 intergene MYL2 - CUX2 T G 1.00 1.00 0.84 1.00 1.00 0.97 5.0E-09
rs1294421 6 6,743,149 intergene LY86 - BTF3P7 G T 0.77 0.50 0.26 0.61 0.40 0.53 2.0E-17
rs13034723 2 190,985,680 intron C2orf88 A G 0.06 0.45 0.69 0.46 0.70 0.45 2.0E-08
rs13389219 2 165,528,876 intergene EIF3EP3 - COBLL1 C T 0.20 0.74 0.90 0.56 0.78 0.60 3.0E-08
rs1443512 12 54,342,684 intergene HOXC13 - HOXC12 A C 0.64 0.21 0.17 0.22 0.32 0.34 6.0E-17
rs1555543 1 96,944,797 intergene EEF1A1P11 - NDUFS5P2 C A 0.39 0.57 0.88 0.58 0.51 0.58 4.0E-10
rs1957894 14 61,908,111 intron PRKCH T G 0.77 0.13 0.41 0.08 0.11 0.34 3.0E-10
rs2030323 11 27,728,539 intron BDNF C A 0.95 0.83 0.51 0.77 0.70 0.76 3.0E-22
rs2075064 9 126,783,847 intron LHX2 C T 0.93 0.54 0.58 0.56 0.65 0.68 2.0E-08
rs2307111 5 75,003,678 missense POC5 T C 0.08 0.52 0.47 0.60 0.40 0.38 3.0E-12
rs2568958 1 72,765,116 intergene GDI2P2 - RPL31P12 A G 0.53 0.70 0.93 0.64 0.62 0.68 4.0E-16
rs2815752 1 72,812,440 intergene RPL31P12 - KRT8P21 A G 0.53 0.70 0.93 0.64 0.62 0.68 2.0E-22
rs2890652 2 142,959,931 intergene RPS16P3 - KYNU C T 0.38 0.09 0.00 0.17 0.06 0.16 1.0E-10
rs29941 19 34,309,532 intergene KCTD15 - RPS4XP20 G A 0.85 0.61 0.24 0.67 0.62 0.61 7.0E-12
rs3101336 1 72,751,185 intergene GDI2P2 - RPL31P12 C T 0.53 0.70 0.93 0.64 0.62 0.68 1.0E-13
rs3810291 19 47,569,003 3′-UTR ZC3H4 A G 0.09 0.51 0.27 0.66 0.40 0.36 2.0E-12
rs591166 18 57,841,589 intergene RPS3AP49 - MC4R A T 0.82 0.38 0.22 0.43 0.49 0.50 7.0E-14
rs6265 11 27,679,916 missense;ncRNA BDNF, BDNF-AS C T 0.99 0.85 0.51 0.80 0.80 0.80 5.0E-10
rs6545814 2 25,131,316 intron ADCY3 G A 0.85 0.35 0.42 0.43 0.46 0.54 1.0E-13
rs671 12 112,241,766 missense ALDH2 G A 1.00 1.00 0.83 1.00 1.00 0.96 3.0E-11
rs713586 2 25,158,008 intergene ADCY3 - DNAJC27 C T 0.92 0.38 0.48 0.47 0.48 0.58 6.0E-22
rs718314 12 26,453,283 intergene SSPN - ITPR2 G A 0.19 0.49 0.70 0.24 0.24 0.35 1.0E-17
rs7184597 16 28,921,809 intron RABEP2 T C 0.01 0.45 0.12 0.28 0.16 0.18 7.0E-09
rs7359397 16 28,885,659 downstream of SH2B1 SH2B1 T C 0.01 0.47 0.12 0.33 0.19 0.19 2.0E-20
rs7531118 1 72,837,239 intergene RPL31P12 - KRT8P21 C T 0.05 0.38 0.26 0.55 0.29 0.29 2.0E-17
rs7586879 2 25,116,977 intron ADCY3 T C 0.86 0.29 0.37 0.35 0.43 0.50 4.0E-08
rs7708584 5 153,543,466 intergene MFAP3 - GALNT10 A G 0.26 0.63 0.96 0.44 0.47 0.53 5.0E-14
rs9356744 6 20,685,486 intron CDKAL1 T C 0.30 0.67 0.61 0.68 0.71 0.57 5.0E-13
  1. aThe variant coordinates were based on the human genome assembly GRCh37
  2. bAnnotations were obtained from the NHGRI-EBI GWAS Catalog
  3. cAll alleles were reported on the forward strand