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Table 2 Ethnic differences in major genetic variants associated with serum ALP levels

From: Genome-wide association study on serum alkaline phosphatase levels in a Chinese population

SNP

Gene

Chr

Effect allele

Present study (Chinese)a

Japaneseb

CEUb

P value of Q

I2

No. of studies

EAF

Effect size

P value

EAF

Effect size

P value

EAF

Effect size

P value

rs1780324

NBPF3-ALPL

1

T

0.29

0.020

9.56 × 10-2

0.28

0.075

7.14 × 10-5

0.44

0.031

7.0 × 10-15

0.051

0.664

3

rs2242420

ALPL

1

T

0.20

-0.032

3.70 × 10-2

0.18

0.163

5.08 × 10-13

0.14

-

-

2.61 × 10-6

0.955

2

rs16856332

ABCB11

2

G

0.06

-0.026

0.270

0.07

-

-

0.39

0.031

1.6 × 10-9

0.638

0.000

2

rs9467160

GPLD1

6

A

0.03

-0.032

0.369

0.003

-0.05

0.76

0.21

0.034

1.2 × 10-11

0.171

0.433

3

rs6911965

GPLD1

6

C

0.11

-0.056

1.61 × 10-3

0.66

-0.235

2.13 × 10-11

0.17

-

-

5.35 × 10-6

0.952

2

rs6984305

PPP1R3B

8

A

0.01

0.010

0.863

0

-

-

0.11

0.027

2.1 × 10-10

0.772

0.000

2

rs2954021

TRIB1

8

A

0.41

0.035

2.51 × 10-3

0.43

-

-

0.50

0.014

2.3 × 10-13

0.095

0.641

2

rs10819937

C9orf125

9

C

0.36

0.020

0.114

0.32

-

-

0.17

0.025

1.0 × 10-9

0.741

0.000

2

rs657152

ABO

9

T

0.46

-0.062

3.78 × 10-8

0.44

-0.223

1.35 × 10-38

0.38

-0.047

1.7 × 10-30

0

0.975

3

rs12355784

JMJD1C

10

C

0.33

0.029

1.60 × 10-2

0.50

0.046

8.66 × 10-3

0.49

0.025

5.0 × 10-10

0.558

0.000

3

rs10761779

REEP3

10

G

0.37

0.031

7.83 × 10-3

0.45

-

-

0.49

0.025

6.9 × 10-10

0.634

0.000

2

rs174601

FADS2

11

A

0.41

0.007

0.563

0.38

-

-

0.35

0.017

2.6 × 10-9

0.075

0.684

2

rs2236653

ST3GAL4

11

T

0.70

-0.024

4.40 × 10-2

0.60

-

-

0.42

0.015

1.8 × 10-9

0.488

0.000

2

rs7173947

intergenic

15

C

0.33

-0.010

0.391

0.29

-0.105

3.23 × 10-8

0.41

-

-

2.75 × 10-5

0.943

2

rs7186908

PMFBP1

16

C

0.22

-0.028

4.73 × 10-2

0.34

-

-

0.24

0.02

4.8 × 10-9

1.35 × 10-3

0.903

2

rs314253

DLG4

17

G

0.51

0.005

0.658

0.52

-

-

0.33

0.021

8.4 × 10-12

0.179

0.447

2

rs281377

FUT2

19

T

0.86

0.045

2.56 × 10-2

0.87

-

-

0.43

0.018

1.1 × 10-15

2.42 × 10-3

0.891

2

rs7267979

ABHD12

20

G

0.07

-0.031

0.173

0.10

-

-

0.57

0.015

7.4 × 10-10

0.484

0.000

2

  1. aIn order to get genotypes of all reported SNPs, imputed genotype data were used in the presented ethnic comparison table. EAF is short for effect allele frequency.
  2. bQuoted from Chambers, et al. [15], Kamatani, et al. [16] and Yuan, et al. [17].
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BMC Genomics

ISSN: 1471-2164

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