Table 2 The variance explained (R2) for the three sets of SNPs tested (all, HLA only and non-HLA) at the different thresholds tested

From: Common polygenic variation in coeliac disease and confirmation of ZNF335 and NIFA as disease susceptibility loci

 

Variance explained (delta R2)

P values

Threshold (-log10(P))

All

non-HLA

HLA only

All

Non-HLA

HLA only

5 × 10−8

0.327

0.041

0.259

1.1 × 10−69

1.3 × 10−17

5.6 × 10−66

0.01

0.343

0.045

0.25

2.0 × 10−73

3.6 × 10−18

5.7 × 10−66

0.05

0.349

0.017

0.294

9.2 × 10−75

8.3 × 10−10

3.1 × 10−71

0.1

0.321

0.005

0.31

1.3 × 10−58

0.006

2.0 × 10−70

0.2

0.281

8.9 × 10−5

0.323

3.8 × 10−47

0.081

1.5 × 10−70

0.3

0.266

7.5 × 10−6

0.328

5.6 × 10−43

0.128

2.3 × 10−71

0.4

0.196

2.8 × 10−5

0.291

6.4 × 10−26

0.213

2.2 × 10−62

0.5

0.225

4.0 × 10−4

0.334

3.7 × 10−26

0.318

5.3 × 10−72

  1. P values were calculated for the difference in score between cases and controls using Student’s t test.
Back to article page