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Table 3 Hardy-Weinberg equilibrium (HWE) test and effect allele frequency (EAF) in Chinese children for32 GWA studies -derived SNPs

From: Association of common variants identified by recent genome-wide association studies with obesity in Chinese children: a case-control study

SNP

Nearest gene

Chr

Position

Allele

HWE P-valuea

EAFb

EAFc

F ST

Effect

Other

Speliotes et al. 2010 (in children and adults of European ancestry) [4]

rs1558902

FTO

16

52361075

A

T

0.58

0.13

0.42

0.105e

rs2867125

TMEM18

2

612827

C

T

0.20

0.91

0.83

0.014

rs571312

MC4R

18

55990749

A

C

0.67

0.23

0.24

0.000

rs10938397

GNPDA2

4

44877284

G

A

0.54

0.31

0.43

0.015

rs10767664

BDNF

11

27682562

A

T

0.30

0.55

0.78

0.059

rs2815752

NEGR1

1

72585028

A

G

0.97

0.92

0.61

0.134e

rs7359397

SH2B1

16

28793160

T

C

0.17

0.16

0.40

0.071

rs9816226

ETV5

3

187317193

T

A

0.36

0.97

0.82

0.060

rs3817334

MTCH2

11

47607569

T

C

0.16

0.33

0.41

0.007

rs29942d

KCTD15

19

39001117

C

T

0.76

0.25

0.31

0.004

rs543874

SEC16B

1

176156103

G

A

0.80

0.22

0.19

0.001

rs987237

TFAP2B

6

50911009

G

A

0.52

0.18

0.18

0.000

rs7138803

FAIM2

12

48533735

A

G

0.01

0.28

0.38

0.011

rs713586

RBJ

2

25011512

C

T

0.77

0.49

0.47

0.000

rs2241423

MAP2K5

15

65873892

G

A

0.67

0.41

0.78

0.142e

rs2287019

QPCTL

19

50894012

C

T

0.09

0.82

0.80

0.001

rs1514175

TNNI3K

1

74764232

A

G

0.91

0.78

0.43

0.128e

rs2112347

FLJ35779

5

75050998

T

G

0.88

0.44

0.63

0.036

rs16912921d

LRRN6C

9

28403461

A

C

0.19

0.30

0.34

0.002

rs3810291

TMEM160

19

52260843

A

G

0.58

0.29

0.67

0.145e

rs1555543

PTBP2

1

96717385

C

A

0.81

0.87

0.59

0.099

rs9579083d

MTIF3

13

26915270

C

G

0.87

0.15

0.23

0.010

rs4929949

RPL27A

11

8561169

C

T

0.79

0.40

0.52

0.014

rs206936

NUDT3

6

34410847

G

A

0.30

0.51

0.21

0.098

Scherag et al. 2010 (in children and adults of European ancestry) [6]

rs12145833

SDCCAG8

1

241550377

T

G

0.55

0.91

0.87

0.004

rs13278851

TNKS/MSRA

8

9788282

A

G

0.28

0.14

0.11

0.002

Bradfield et al. 2012 (in children of European ancestry) [5]

rs9568856

OLFM4

13

52962982

A

G

0.34

0.33

0.16

0.039

rs9299

HOXB5

17

44024429

A

G

0.44

0.53

0.65

0.015

Okada et al. 2012 (in East Asians) [7]

rs2206734

CDKAL1

6

20802863

G

A

0.66

0.59

0.59

0.000

rs11142387

KLF9

9

72188152

C

A

0.96

0.33

0.46

0.018

Wen et al. 2012 (in East Asians) [8]

rs261966d

PCSK1

5

95875343

G

A

0.53

0.45

0.42

0.001

rs12597579

GP2

16

20165368

C

T

0.99

0.73

0.80

0.007

  1. Chr Chromosome; Position: NCBI build 36.3 (NCBI, Bethesda, MD); EAF Effect allele frequency, HWE Hardy-Weinberg equilibrium
  2. aHWE P-value in normal-weight Chinese children
  3. bEffect allele frequency in all genotyped individuals of the present study
  4. cEffect allele frequency of SNPs in the discovery studies (Ref. [4-8]), and that of each proxy SNP is from NCBI database among the same populations that in the discovery study
  5. dProxy SNPs were used in the present study to replace the SNPs from the discovery studies
  6. eFST > 0.10 as indicator of large genetic differentiation between population in the present study and that in the discovery study
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BMC Medical Genetics

ISSN: 1471-2350

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