Table 5

Haplotype Interactions within Blocks, i.e. interactions between polymorphisms that are located on one chromosome. Hence substantially more polymorphisms are in complete association than in Table 4. Significant up- or down interaction is indicated with bold typeface.

Block/Chrom.Loc. Or SNP Pair/Gene Pair

NGT (control)

IGM

T2DM


P Value

Z Score

P Value

Z Score

P Value

Z Score


1/1

(V1:V4)/(MTHFR:NPPA)

0.005

-2.35

<0.001

-5.11

<0.001

-7.45

(V2:V4)/(AGT:NPPA)

0.705

0.16

0.095

-1.58

0.055

-2.12

5/5

(V14:V15)/(ADRB2:ADRB2)

<0.001

-18.56

<0.001

-28.55

<0.001

-24.69

6/6

(V19:V21)/(LTA:TNF)

<0.001

-2.38

<0.001

-20.07

<0.001

-23.57

(V20:V23)/(TNF:TNF)

0.005

-10.08

<0.001

-22.33

<0.001

-11.91

7/7

(V31:V32)/(PAI1:PAI1)

<0.001

-9.16

<0.001

-17.77

<0.001

-27.53

8/8

(V34:V35)/(LPL:LPL)

<0.001

-∞

<0.001

-25.74

<0.001

-24.56

9/11

(V38:V40)/(APOA4:APOC3)

<0.001

-11.90

<0.001

-10.55

<0.001

-15.97

(V38:V41)/(APOA4:APOC3)

0.015

-2.700

<0.001

-1.49

<0.001

-6.33

(V38:V42)/(APOA4:APOC3)

<0.001

-10.50

<0.001

-4.48

<0.001

-23.90

(V38:V43)/(APOA4:APOC3)

0.145

-1.53

0.025

-3.00

0.010

-0.61

(V39:V40)/(APOA4:APOC3)

0.405

-0.69

0.005

-4.26

<0.001

-4.37

(V39:V42)/(APOA4:APOC3)

0.715

-0.34

0.035

-0.51

0.050

-0.33

(V40:V41)/(APOC3:APOC3)

<0.001

-12.81

<0.001

-10.77

<0.001

-21.46

(V40:V42)/(APOC3:APOC3)

<0.001

-11.49

<0.001

-7.39

<0.001

-50.76

(V40:V44)/(APOC3:APOC3)

0.015

-3.97

<0.001

-6.40

<0.001

-3.98

(V41:V42)/(APOC3:APOC3)

<0.001

-5.74

<0.001

-25.00

<0.001

-36.81

(V41:V43)/(APOC3:APOC3)

<0.001

-1.00

<0.001

-7.29

<0.001

-0.90

(V41:V44)/(APOC3:APOC3)

<0.001

-10.40

<0.001

-13.19

<0.001

-13.75

(V42:V43)/(APOC3:APOC3)

0.800

0.15

<0.001

-3.47

0.925

1.08

(V42:V44)/(APOC3:APOC3)

<0.001

-6.68

<0.001

-9.03

<0.001

-5.75

(V43:V44)/(APOC3:APOC3)

0.005

-5.92

<0.001

-16.54

<0.001

-7.07

10/12

(V48:V49)/(SCNN1A:SCNN1A)

0.585

-0.84

0.010

-0.51

0.045

-0.76

11/13

(V51:V52)/(F7:F7)

<0.001

-24.90

<0.001

-33.99

<0.001

-48.37

13/16

(V54:V55)/(CETP:CETP)

0.005

-4.14

0.005

-4.78

<0.001

-0.73

(V54:V58)/(CETP:CETP)

1.000

1.00

0.005

-7.65

1.000

1.00

(V54:V60)/(CETP:CETP)

0.025

-2.64

0.015

-4.02

<0.001

-5.04

(V55:V56)/(CETP:CETP)

0.025

-2.30

<0.001

-4.71

<0.001

-8.17

(V55:V60)/(CETP:CETP)

<0.001

-21.23

<0.001

-43.59

<0.001

-55.84

(V56:V60)/(CETP:CETP)

0.050

-1.73

0.015

-2.68

<0.001

-5.72


Criteria for significant up- or down- interaction are P ≤ 0.05 and P ≥ 0.145. Thus, for instance, in the NGT subjects there is significant interaction between NPPA and ADBR2 (P = 0.015), which is absent in the IGM (P = 0.455) and the T2DM (P = 0.410; Table 4). Hence, IGM and T2DM status (i.e. a disturbed glucose metabolism) are associated with down-interaction between NPPA and ADRB2. When significant interactions between two polymorphisms is detected irrespective of the insulin resistant state (i.e. is present in NGT, IGM as well as in T2DM), this means that these polymorphisms are in complete association, for example, interaction between MTHFR and NPPA is P = 0.005 in the NGT subjects, P < 0.001 in the IGM subjects and P < 0.001 in the T2DM subjects (Table 5). This association is, by itself not informative for the insulin resistance state but may indicate involvement of the genes via a transitive interaction (see results section)

van Greevenbroek et al. BMC Medical Genetics 2008 9:36   doi:10.1186/1471-2350-9-36

Open Data