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Table 3 Haplotype frequencies in Coeliacs and Controls.

From: Evaluation of 6 candidate genes on chromosome 11q23 for coeliac disease susceptibility: a case control study

IL18-607

IL18-137

*Coeliac

*Control

Hap-Freq

Hap-Score

p-val

sim p-val

Coeliac 1 Vs Control 1

     

A

C

0.251

0.284

0.277

-0.717

0.473

0.467

A

G

0.136

0.156

0.138

-0.776

0.443

0.438

C

G

0.591

0.558

0.571

0.161

0.872

0.867

C

C

0.022

0.002

0.014

4.056

0.00005

0.00015

Coeliac 2 Vs Control 2

     

A

C

0.173

0.269

0.264

-1.231

0.218

0.241

A

G

0.164

0.127

0.129

1.162

0.245

0.241

C

G

0.591

0.597

0.597

-0.283

0.777

0.789

C

C

0.072

0.007

0.009

3.139

0.002

0.004

Coeliac (1 + 2) Vs Control (1 + 2)

   

A

C

0.234

0.275

0.271

-0.909

0.364

0.364

A

G

0.142

0.138

0.134

0.577

0.564

0.566

C

G

0.591

0.582

0.584

-0.630

0.529

0.531

C

C

0.032

0.005

0.012

4.956

0.00001

0.00001

  1. Case and Control haplotype frequencies were calculated using Phase v2*. All other calculations were performed using Haplostats, and corrected for the effects of age and sex. P values are presented without correction for multiple testing. Haplotype IL18-607C/-137C is rare but confers risk (highly significant). Case 1 Vs Control 1, Haplostats global-stat = 16.880, df = 3, P < 0.00075. The same effect is evident when comparing coeliac 2 to control cohort 2, Haplostats global-stat = 12.49, df = 3, P = 0.0059. For comparison of pooled cases (1 + 2) Vs pooled controls (1 + 2), Haplostats global-stat = 25.620, df = 3, P < 0.00001, Phase v2, overall P = 0.01, Hitagene, P < 0.05.