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Table 1 Characteristics of the associations between GWAS-identified SNPs and BMI in populations of European and East Asian Ancestry

From: Obesity genomics: assessing the transferability of susceptibility loci across diverse populations

Marker info

Results in European ancestry populations (derived from Speliotes et al. [19])

Results in East Asian ancestry populations (derived from Wen et al. [39])

Ancestry of discovery population

Reference(s)

Locus

SNP

Effect allele

Other allele

Effect allele frequency

Effect size

Standard error

P-value

Explained variance (%)

Effect allele frequency

Effect size

Standard error

P-value

Explained variance (%)

  

FTO

rs17817449

g

t

40%

0.080

0.004

1.4E-97

0.31%

17%

0.085

0.008

4.6E-27

0.20%

European

[14, 15]

near MC4R

rs6567160

c

t

24%

0.060

0.004

2.4E-41

0.13%

21%

0.056

0.007

2.8E-15

0.11%

European and Indian Asian

[16.36]

near TMEM18

rs11127485

t

c

83%

0.060

0.005

1.3E-33

0.10%

91%

0.051

0.010

1.2E-06

0.04%

 

[17, 18]

near SEC16B

rs574367

t

g

20%

0.049

0.005

1.7E-25

0.08%

20%

0.066

0.007

9.5E-20

0.14%

European

[18]

BDNF

rs6265

c

t

81%

0.043

0.005

2.1E-19

0.06%

44%

0.045

0.006

3.6E-13

0.10%

European

[18]

near GNPDA2

rs10938397

g

a

43%

0.041

0.004

2.2E-26

0.08%

29%

0.037

0.007

9.7E-08

0.06%

European

[17]

near ETV5

rs7647305

c

t

79%

0.039

0.005

1.2E-16

0.05%

95%

0.026

0.015

0.09

0.01%

European

[18]

near NEGR1

rs2568958

a

g

61%

0.033

0.004

8.7E-18

0.05%

92%

0.023

0.011

0.04

0.01%

European

[17, 18]

near FAIM2

rs7138803

a

g

38%

0.032

0.004

4.2E-17

0.05%

31%

0.020

0.006

1.7E-03

0.02%

European

[18]

SH2B1

rs4788102

a

g

40%

0.029

0.004

1.0E-13

0.04%

13%

0.024

0.009

6.5E-03

0.01%

European

[17, 18]

MTCH2

rs3817334

t

c

41%

0.024

0.004

1.9E-10

0.03%

31%

0.024

0.006

1.8E-04

0.02%

European

[17]

near KCTD15

rs29941

g

a

67%

0.021

0.004

1.1E-07

0.02%

23%

0.007

0.007

0.30

0.00%

European

[17, 18]

near PRKD1

rs11847697

t

c

4%

0.053

0.010

2.8E-07

0.02%

0%

    

European

[29]

SLC39A8

rs13107325

t

c

7%

0.046

0.008

2.6E-08

0.03%

0%

    

European

[29]

TFAP2B

rs4715210

t

c

17%

0.043

0.005

3.9E-18

0.05%

21%

0.038

0.007

1.6E-07

0.05%

European

[29]

near GPRC5B

rs12444979

c

t

86%

0.042

0.006

2.5E-13

0.04%

0%

    

European

[29]

GIPR-QPTCL

rs2287019

c

t

80%

0.032

0.005

1.4E-09

0.03%

79%

0.016

0.008

0.05

0.01%

European

[29]

MAP2K5

rs2241423

g

a

78%

0.032

0.004

1.0E-12

0.03%

38%

0.031

0.006

2.3E-09

0.05%

European

[29]

near ADCY3/RBJ

rs713586

c

t

47%

0.030

0.004

3.1E-15

0.05%

46%

0.029

0.007

1.4E-13

0.04%

European

[29]

near FLJ35779 (HMGCR)

rs2112347

t

g

63%

0.029

0.005

1.0E-13

0.04%

44%

0.018

0.006

3.9E-03

0.02%

European

[29]

near TMEM160

rs3810291

a

g

67%

0.028

0.005

5.1E-11

0.04%

24%

0.035

0.008

2.7E-05

0.04%

European

[29]

near LRP1B

rs2890652

c

t

18%

0.028

0.005

3.6E-08

0.02%

0%

    

European

[29]

MTIF3

rs4771122

g

a

24%

0.027

0.005

2.0E-09

0.03%

22%

0.005

0.009

0.62

0.00%

European

[29]

CADM2

rs13078807

g

a

20%

0.026

0.005

3.9E-08

0.02%

0%

    

European

[29]

near FANCL

rs887912

t

c

29%

0.024

0.004

6.3E-09

0.02%

0%

    

European

[29]

LRRN6C

rs10968576

g

a

32%

0.024

0.004

2.5E-09

0.03%

19%

0.009

0.008

0.28

0.00%

European

[29]

NRXN3

rs10150332

c

t

22%

0.024

0.005

1.5E-07

0.02%

0%

    

European

[29]

near PTBP2

rs1555543

c

a

59%

0.024

0.005

5.2E-10

0.03%

87%

0.005

0.009

0.57

0.00%

European

[29]

TNNI3K

rs1514175

a

g

43%

0.023

0.005

1.0E-09

0.03%

79%

0.029

0.007

6.4E-05

0.03%

European

[29]

NUDT3

rs206936

g

a

20%

0.020

0.005

3.3E-05

0.01%

56%

0.008

0.006

0.22

0.00%

European

[29]

near ZNF608

rs4836133

a

c

48%

0.018

0.005

6.4E-06

0.02%

0%

    

European

[29]

near RPL27A

rs4929949

c

t

52%

0.018

0.005

1.6E-06

0.02%

43%

0.018

0.007

0.01

0.02%

European

[29]

GIPR/QPTCL

rs11671664

g

a

89%

0.029

0.009

1.2E-03

0.02%

50%

0.044

0.006

5.9E-14

0.10%

East Asian

[38, 39]

near KLF9

rs11142387

c

a

53%

0.003

0.005

0.45

0.00%

46%

0.040

0.007

1.3E-09

0.08%

East Asian

[38]

near GP2

rs12597579

c

t

95%

0.028

0.011

9.0E-03

0.01%

80%

0.036

0.006

1.0E-08

0.04%

East Asian

[39]

CDKAL1

rs9356744

t

c

68%

0.007

0.005

0.19

0.00%

58%

0.034

0.005

2.0E-11

0.06%

East Asian

[38, 39]

near PCSK1

rs261967

c

a

43%

0.015

0.005

1.6E-03

0.01%

41%

0.031

0.005

5.1E-09

0.05%

East Asian

[39]

  1. The table includes 32 SNPs identified in European Ancestry populations [14–19, 36] and four SNPs identified in East Asian ancestry populations [38, 39], sorted by year of discovery and subsequently by effect size in the population in which discovery was made. Data were obtained and adapted from Speliotes et al. [19] and from Wen et al. [39].