Table 5. .
Two-Marker Haplotypes for the IL12B Region[Note]
| Discovery Sample SetGlobal P=.001 |
Replication 1 Sample SetGlobal P=5.13×10-8 |
Replication 2 Sample SetGlobal P=.029 |
Combined AnalysisGlobala Pcomb=5.94×10-10 |
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| Haplotype |
No. (Frequency) in |
No. (Frequency) in |
No. (Frequency) in |
||||||||||||
| rs3212227 | rs6887695 | Case (n=467) | Control (n=460) | OR | P | Case (n=498) | Control (n=498) | OR | P | Case (n=481) | Control (n=424) | OR | P | ORcommon (95%CI)b |
Pcomba |
| A | G | 667 (.714) | 587 (.638) | 1.42 | 3.27×10−4 | 716 (.719) | 631 (.634) | 1.48 | 1.35×10−5 | 678 (.705) | 548 (.646) | 1.31 | 6.00×10−3 | 1.40 (1.25–1.57) | 8.11×10−9 |
| A | C | 134 (.144) | 141 (.153) | .93 | .454 | 144 (.145) | 143 (.142) | 1.01 | .874 | 124 (.129) | 120 (.142) | .90 | .345 | .95 (.82–1.10) | .680 |
| C | C | 103 (.110) | 152 (.166) | .63 | 5.80×10−4 | 96 (.096) | 188 (.190) | .46 | 2.56×10−9 | 117 (.122) | 140 (.165) | .70 | 7.00×10−3 | .58 (.50–.68) | 5.65×10−12 |
| C | G | 30 (.032) | 40 (.043) | .73 | .145 | 40 (.040) | 34 (.035) | 1.18 | .731 | 43 (.045) | 40 (.047) | .95 | .693 | .94 (0.72–1.24) | .516 |
Note.— A pseudo-Gibbs sampling algorithm from the program SNPAnalyzer was used to estimate haplotype frequencies from unphased data, with cases and controls treated separately. The Haplo.Stats package was used to test for association between haplotypes and disease status.
a
Calculated using Fisher’s combined test.
b
Calculated using a Mantel-Haenszel common OR.