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Table 2 Type 2 Diabetes case-control association study of the 14 PTPN1 SNPs.

From: Analysis of common PTPN1gene variants in type 2 diabetes, obesity and associated phenotypes in the French population

 

First T2D case-control study

Second T2D case-control study

All cases vs all controls

 

MAF in group D1 (n = 325)

MAF in group C1 (n = 311)

Allelic p-values

OR [95% CI]

MAF in group D2 (n = 902)

MAF in group C2 (n = 736)

Allelic p-values

OR [95% CI]

MAF in the total group of cases (n = 1227)

MAF in the total group of controls (n = 1047)

Allelic p-values

Dominant model p-values

Recessive model p-values

-7077 G/C

31.7

36.3

0.09

1.23 [0.97–1.55]

36.6

37.4

0.63

1.04 [0.90–1.20]

35.3

37.1

0.20

0.17

0.43

rs6020563 T/G

44.0

50.4

0.04

1.29 [1.01–1.65]

49.3

47.3

0.26

1.09 [0.94–1.26]

48.0

48.1

-

-

-

rs2426157 A/G

25.5

26.6

0.66

1.06 [0.82–1.36]

28.0

29.0

0.53

1.05 [0.90–1.23]

27.3

28.3

0.44

0.14

0.92

rs3787335 T/G

6.3

8.5

0.14

1.38 [0.90–2.12]

7.7

8.1

0.73

1.05 [0.81–1.35]

7.4

8.2

0.29

0.85

0.26

rs6126033 C/T

5.4

7.5

0.12

1.43 [0.90–2.26]

6.5

6.8

0.80

1.04 [0.78–1.38]

6.2

7.0

0.30

0.85

0.30

rs941798 A/G

51.4

47.5

0.17

1.17 [0.94–1.46]

46.4

45.1

0.48

1.05 [0.91–1.21]

47.8

45.8

0.18

0.33

0.27

rs1570179 C/T

31.8

34.4

0.34

1.12 [0.89–1.42]

34.7

35.4

0.65

1.03 [0.89–1.20]

33.9

35.1

0.38

0.17

0.80

rs2426159 A/G

43.6

48.2

0.10

1.20 [0.96–1.50]

46.2

47.2

0.59

1.04 [0.90–1.20]

45.5

47.5

0.18

0.56

0.13

rs3787345 C/T

36.0

40.7

0.09

1.22 [0.97–1.53]

40.6

39.8

0.66

1.03 [0.89–1.19]

39.2

40.0

0.58

0.46

0.84

rs6020608 C/T

27.1

27.7

0.82

1.03 [0.80–1.32]

28.5

29.1

0.75

1.03 [0.88–1.20]

28.1

28.7

0.70

0.20

0.83

rs754118 C/T

33.6

35.1

0.57

1.07 [0.84–1.36]

34.9

35.6

0.67

1.03 [0.89–1.20]

34.5

35.5

0.51

0.15

0.94

rs2282146 C/T

5.9

6.7

0.55

1.15 [0.72–1.82]

6.0

6.7

0.47

1.11 [0.84–1.48]

6.0

6.7

0.35

0.91

0.34

rs718050 G/A

34.4

37.0

0.36

1.12 [0.88–1.41]

36.8

36.3

0.80

1.02 [0.88–1.18]

36.1

36.5

0.78

0.79

0.85

rs914458 C/G

27.5

30.5

0.26

1.16 [0.90–1.49]

29.1

30.4

0.42

1.07 [0.91–1.25]

28.7

30.4

0.20

0.02

0.78

  1. All SNPs were in Hardy-Weinberg equilibrium in the different groups tested. Minor Allele Frequencies (MAF) are given for each group and for the pooled sample. P-values, odds-ratios (OR) and 95% confidence interval (95%CI) were estimated by a chi-square test for both initial case-control studies. Individual ORs are given for each SNP as "at-risk" vs. "protective" alleles. The combined p-values were determined by the Mantel-Haenszel interaction test. For the combined analysis, the p-values for dominant and recessive genetic models are also given. For SNP rs914458, which showed an association under the dominant model from the combined analysis, the OR value was 1.43, [95%CI: 1.06–1.94].
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BMC Medical Genetics

ISSN: 1471-2350

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