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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.