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Table 5 Comparison of SNP allele frequencies of the studied Caucasian sample with the data on Asian populations from databases and literature

From: Current limitations of SNP data from the public domain for studies of complex disorders: a test for ten candidate genes for obesity and osteoporosis

Gene

SNP

Reference population

Database or reference

Data from a database or reference

Caucasiansa

P

    

Frequencyb

n

Frequency

n

 

ER-α

9

Japanese

[83]

0.412

200

0.484

1,861

0.06

  

Thai females

[84]

0.337

129

0.484

1,861

<0.01

 

10

Korean males

[85]

0.39

219

0.449

1,861

0.11

  

Korean females

[86]

0.415

248

0.449

1,861

0.35

  

Japanese children

[87]

0.431

102

0.449

1,861

0.80

  

Taiwanese

[88]

0.39

246

0.449

1,861

0.09

  

Thai females

[89]

0.414

134

0.449

1,861

0.49

 

11

SANGER 12 DNAs of Asian origin

dbSNP

0.36

12

0.257

1,857

0.49

 

12

Japanese

[83]

0.483

200

0.218

1,859

<0.01

  

Japanese females

[90]

0.481

306

0.218

1,859

<0.01

 

13

Japanese

JSNP

0.34

744

0.098

1,863

<0.01

  

TSC panel of unrelated Asians

TSC

0.27

32

0.098

1,863

0.01

 

14

Japanese

JSNP

0.296

752

0.119

1,861

<0.01

 

15

Japanese

JSNP

0.18

741

0.203

1,863

0.21

  

Japanese

[83]

0.21

200

0.203

1,863

0.88

IL-6

16

Chinese

[31]

0.997

147

0.434

1,860

<0.01

  

Chinese males

[31]

0.998

259

0.434

1,860

<0.01

  

Japanese

[31]

1.000

388

0.434

1,860

<0.01

LEPR

20

TSC panel of unrelated Asians

dbSNP

0.13

42

0.353

1,860

<0.01

  

Japanese

JSNP

0.15

748

0.353

1,860

<0.01

PTHR1

22

Japanese

JSNP

0.43

747

0.398

1,861

0.14

 

23

Japanese

JSNP

0.43

748

0.374

1,863

0.01

 

24

Japanese

JSNP

0.44

750

0.397

1,855

0.05

 

25

Japanese

JSNP

0.43

746

0.380

1,851

0.02

TGF-ß1

26

TSC panel of unrelated Asians

dbSNP

0.47

36

0.311

1,840

0.06

TNFR2

31

Japanese

[91]

0.113

265

0.198

1,842

<0.01

  

Thai

[92]

0.127

201

0.198

1,842

0.02

UCP3

33

Asiansc

[73]

0.00

11

0.000

295

10.00

 

35

Japanese

JSNP

0.45

750

0.447

1,863

0.92

 

36

Asiansc

[73]

0.04

11

0.000

295

0.54

VDR

37

Japanese

JSNP

0.23

750

0.281

1,861

0.01

 

38

Japanese

[93]

0.37

195

0.373

1,861

0.99

 

40

SANGER 12 DNAs of Asian origin

dbSNP

0.41

12

0.419

1,860

0.77

  

Chinese females (Han nationality)

[94]

0.043

162

0.419

1,860

<0.01

  

Taiwanese

[95]

0.083

90

0.419

1,860

<0.01

  

Japanese

[93]

0.13

195

0.419

1,860

0.02

  

Koreans

[96]

0.055

211

0.419

1,860

<0.01

  

Thai females

[97]

0.107

84

0.419

1,860

0.01

 

41

Chinese (Han nationality)

[98]

0.05

223

0.408

1,859

<0.01

  

Japanese females

[99]

0.135

119

0.408

1,859

<0.01

  

Koreans

[96]

0.055

120

0.408

1,859

<0.01

  1. For gene abbreviations and SNP designations see Table 1. a Present study. b Frequency of the allele corresponding to a minor allele in the present study. c Asians with unidentified ethnic background.