Table 5.
Gene | Markers | Hap ID | Hap allele | Hap P# | Other P# | HapT# | Other T# | chisq | df | p-value | Fisher p-value |
---|---|---|---|---|---|---|---|---|---|---|---|
CYP2D6 | P34S_C1111T_delT_A2638del | 1_1_1_1 | C_C_T_A | 268 | 62 | 124 | 44 | 3.2126 | 1 | 0.0731 | 0.0641 |
CYP2D6 | P34S_C1111T_delT_A2638del | 1_1_1_2 | C_C_T__ | 3 | 327 | 4 | 164 | 0.8402 | 1 | 0.3593 | 0.2329 |
CYP2D6 | P34S_C1111T_delT_A2638del | 1_1_2_1 | C_C___A | 3 | 327 | 1 | 167 | 0.0256 | 1 | 0.8730 | 1.0000 |
CYP2D6 | P34S_C1111T_delT_A2638del | 1_2_1_1 | C_T_T_A | 0 | 330 | 3 | 165 | 3.3214 | 1 | 0.0684 | 0.0379 |
CYP2D6 | P34S_C1111T_delT_A2638del | 2_1_1_1 | T_C_T_A | 56 | 274 | 36 | 132 | 1.1884 | 1 | 0.2756 | 0.2250 |
Table 5 includes all of the observed haplotypes for CYP2D6. In the 2×2 test, each CYP2D6 haplotype was individually tested for association with drug arm. The 2X2 chi-square analyses of CYP2D6 haplotypes show that only the haplotype containing the variant CyP2D6_C1111T was associated with arm, and this association was only of borderline significance (chi-square p-value=0.0684; Fisher p-value = 0.0379). Hap ID is the code for the haplotype (1 is the common allele and 2 is the alternate allele at a given site); Hap allele indicates the nucleotide at the 4 positions for that haplotype; HapP# is the count of the listed haplotype in the Placebo population; HapT# is the count of the listed haplotype in the Tamoxifen population; OtherP# is the count of all other haplotypes in the Placebo population; OtherT# is the count of all other haplotypes in the Tamoxifen population; df is degrees of freedom; p-value is the chi-square p-value.