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Table 1 The two-stage MO-GWAS and joint analysis results of 52 SNPs

From: Genome-wide association study of morbid obesity in Han Chinese

CHR

SNP

POSITION

Gene (Nearest)

Minor Allele

1st Stage

2nd Stage

Joint analysis (1st + 2nd)

OR

SE

Raw-p

OR

SE

Raw-p

OR

SE

Raw-p

Bonferroni

(Raw-p ×  52)

16

rs8050136

53,816,275

FTO

A

1.73

0.11

2.11E-07

1.37

0.09

9.37E-04

1.51

0.07

7.80E-10$

4.13E-08*

16

rs9939609

53,820,527

FTO

A

1.73

0.11

2.20E-07

1.35

0.10

1.58E-03

1.51

0.07

1.32E-09$

7.00E-08*

16

rs1421085

53,800,954

FTO

C

1.65

0.10

1.31E-06

1.32

0.09

3.18E-03

1.46

0.07

1.54E-08$

8.16E-07*

16

rs9941349

53,825,488

FTO

T

1.62

0.09

2.82E-07

1.42

0.18

4.83E-02

1.48

0.07

9.05E-08

4.80E-06*

16

rs1121980

53,809,247

FTO

A

1.59

0.09

1.16E-06

1.19

0.09

5.35E-02

1.36

0.06

7.27E-07

3.85E-05*

16

rs9937354

53,799,847

FTO

A

1.57

0.09

1.18E-06

1.38

0.18

7.46E-02

1.43

0.07

6.65E-07

3.52E-05*

16

rs12925846

6,926,667

RBFOX1

G

0.68

0.09

6.04E-06

0.87

0.08

6.68E-02

0.78

0.06

6.21E-06

3.29E-04*

16

rs17235335

6,928,991

RBFOX1

G

0.69

0.09

1.30E-05

0.88

0.08

8.06E-02

0.79

0.05

1.26E-05

6.68E-04*

14

rs11626956

51,850,031

N/A

G

1.40

0.08

9.57E-06

1.09

0.07

2.39E-01

1.23

0.05

3.35E-05

0.0018*

18

rs2126015

65,545,054

RP11-638 L3.1

C

0.70

0.08

1.76E-05

0.90

0.07

1.69E-01

0.81

0.05

4.64E-05

0.0025*

12

rs159702

29,748,233

TMTC1

C

1.44

0.09

7.31E-05

1.15

0.08

8.60E-02

1.25

0.06

1.50E-04

0.0080*

20

rs6069477

54,491,980

CBLN4

A

1.40

0.08

9.40E-06

1.05

0.07

5.02E-01

1.20

0.05

2.87E-04

0.015*

8

rs16883931

113,664,153

CSMD3

G

1.36

0.08

7.40E-05

1.12

0.07

1.22E-01

1.20

0.05

3.99E-04

0.021*

2

rs6757087

212,680,523

ERBB4

G

1.46

0.08

5.19E-07

1.00

0.07

9.68E-01

1.19

0.05

5.49E-04

0.029*

2

rs9808434

18,694,885

N/A

C

1.45

0.09

1.29E-05

1.05

0.08

5.59E-01

1.20

0.06

8.83E-04

0.047*

8

rs72621457

64,548,431

LOC102724612

G

0.70

0.09

5.12E-05

0.96

0.08

5.64E-01

0.83

0.06

1.12E-03

0.059

4

rs12649045

122,957,607

TRPC3, KIAA1109

T

0.71

0.08

1.40E-05

1.03

0.07

7.12E-01

0.85

0.05

1.31E-03

0.069

8

rs3104994

96,571,283

LOC100616530, C8orf37-AS1

C

1.54

0.11

4.84E-05

1.03

0.10

7.43E-01

1.24

0.07

1.84E-03

0.098

5

rs258019

115,807,688

CTB-118 N6.3 / SEMA6A

C

0.74

0.08

8.26E-05

0.98

0.07

7.29E-01

0.86

0.05

2.39E-03

0.13

1

rs3003482

17,550,601

PADI1

G

0.70

0.08

1.02E-05

1.00

0.07

9.65E-01

0.86

0.05

3.01E-03

0.16

18

rs76010193

65,526,327

RP11-638 L3.1

T

0.73

0.08

5.21E-05

0.98

0.07

7.54E-01

0.86

0.05

2.89E-03

0.15

9

rs74596508

89,361,079

LOC102724080, GAS1

G

0.60

0.14

2.71E-04

0.95

0.26

8.38E-01

0.71

0.12

3.19E-03

0.17

3

rs4859033

88,518,323

N/A

G

0.73

0.08

2.03E-04

0.93

0.08

3.67E-01

0.85

0.06

3.85E-03

0.20

5

rs34971

115,795,188

CTB-118 N6.3 / SEMA6A

T

1.36

0.08

4.25E-05

0.99

0.07

8.63E-01

1.15

0.05

4.34E-03

0.23

12

rs7136269

58,075,937

RPL13AP23 (Pseudo), OS9

A

0.73

0.08

9.66E-05

1.02

0.15

9.19E-01

0.84

0.06

4.71E-03

0.25

4

rs985591

63,331,949

N/A

T

1.39

0.09

1.28E-04

1.02

0.08

8.37E-01

1.17

0.06

5.22E-03

0.28

13

rs9571975

69,218,765

RPS3AP52 (Pseudo), RPL12P34 (Pseudo)

A

1.47

0.09

3.02E-05

0.94

0.09

4.81E-01

1.19

0.06

5.75E-03

0.30

5

rs79393925

80,873,159

SSBP2

C

0.46

0.21

1.47E-04

0.76

0.21

1.86E-01

0.67

0.15

5.84E-03

0.31

12

rs10876994

58,064,737

RPL13AP23 (Pseudo)

A

0.75

0.08

1.60E-04

1.12

0.15

4.59E-01

0.85

0.06

6.15E-03

0.33

11

rs2575826

14,474,971

N/A

T

0.63

0.12

2.00E-04

0.98

0.11

8.69E-01

0.81

0.08

6.64E-03

0.35

16

rs205186

25,574,869

N/A

T

1.52

0.12

4.98E-04

1.05

0.11

6.67E-01

1.24

0.08

7.49E-03

0.40

3

rs59778278

120,809,596

STXBP5L

A

0.53

0.15

2.31E-05

0.89

0.14

4.00E-01

0.77

0.10

1.04E-02

0.55

16

rs237140

26,645,648

N/A

C

0.54

0.15

5.79E-05

1.07

0.12

5.95E-01

0.80

0.09

1.51E-02

0.80

18

rs17681801

50,173,621

DCC

C

1.35

0.08

1.92E-04

1.02

0.08

8.18E-01

1.13

0.05

1.90E-02

1.01

3

rs117383450

168,549,587

N/A

A

0.47

0.21

3.98E-04

0.96

0.17

8.09E-01

0.74

0.13

2.11E-02

1.12

8

rs3104999

96,555,479

LOC100616530, C8orf37-AS1

A

1.33

0.08

2.73E-04

1.00

0.07

9.49E-01

1.12

0.05

2.35E-02

1.25

15

rs16959465

33,129,842

FMN1

G

0.75

0.08

3.58E-04

1.03

0.07

6.64E-01

0.89

0.05

2.37E-02

1.26

1

rs351608

4,384,773

N/A

G

0.72

0.10

4.45E-04

0.94

0.19

7.42E-01

0.84

0.08

2.32E-02

1.23

4

rs2350064

66,709,201

N/A

T

1.50

0.11

1.71E-04

1.00

0.10

9.76E-01

1.17

0.07

2.48E-02

1.31

17

rs465563

3,513,719

SHPK / TRPV1

G

1.46

0.08

3.04E-06

0.91

0.07

2.06E-01

1.12

0.05

2.92E-02

1.55

8

rs10106743

52,371,648

PXDNL

T

0.58

0.16

4.85E-04

0.99

0.30

9.77E-01

0.76

0.13

3.10E-02

1.64

12

rs4763799

12,462,567

LRP6, MANSC1

C

0.71

0.09

1.64E-04

1.05

0.08

5.34E-01

0.88

0.06

3.23E-02

1.71

13

rs9571961

69,167,161

LOC102724158

T

1.48

0.09

2.05E-05

0.88

0.09

1.78E-01

1.14

0.06

3.57E-02

1.89

9

rs2082632

8,794,253

PTPRD

G

0.75

0.08

4.63E-04

1.05

0.07

5.09E-01

0.90

0.05

4.30E-02

2.28

8

rs72664169

90,126,780

N/A

A

1.34

0.08

1.25E-04

0.94

0.07

3.84E-01

1.10

0.05

5.21E-02

2.76

12

rs61919537

63,058,514

PPM1H

C

0.62

0.13

1.35E-04

1.10

0.10

3.72E-01

0.86

0.08

5.90E-02

3.13

1

rs351607

4,384,296

RP5-1166F10.1 (Pseudo)

G

0.70

0.10

2.30E-04

1.03

0.09

7.23E-01

0.89

0.06

6.56E-02

3.48

5

rs17741008

150,896,898

FAT2 / SLC36A1

T

0.71

0.10

4.30E-04

1.08

0.08

3.89E-01

0.90

0.06

7.45E-02

3.95

2

rs2892923

165,438,473

GRB14

C

1.67

0.12

3.38E-05

0.77

0.13

5.04E-02

1.13

0.08

1.57E-01

8.32

1

rs4259589

69,972,693

N/A

G

0.75

0.08

4.45E-04

1.16

0.07

3.88E-02

0.93

0.05

1.90E-01

10.07

6

rs6907980

18,401,381

RNF144B

A

1.35

0.08

3.07E-04

0.88

0.08

1.15E-01

1.06

0.05

2.76E-01

14.63

3

rs1449907

22,573,833

N/A

G

0.73

0.09

2.61E-04

1.13

0.07

9.45E-02

0.95

0.05

3.04E-01

16.11

  1. CHR chromosome, SE standard error, Raw-p: raw p-value. $: p-value < 5 × 10−8; *: Bonferroni correction p-value (raw-p x 52) <  0.05
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