Table 5.
Three-Marker Haplotype Analysis of the rs1861972-rs1861973 Haplotype in the AGRE I Data Seta
| Polymorphism, Diagnostic Criteria, and Haplotype | Frequency | P Valueb |
| rs1861972-rs1861973: | ||
| Narrow: | ||
| A-C | .732 | .002 |
| Broad: | ||
| A-C | .734 | .004 |
| rs6150410: | ||
| Narrow: | ||
| Ins-A-C | .464 | .108 |
| Del-A-C | .267 | .235 |
| Broad: | ||
| Ins-A-C | .467 | .072 |
| Del-A-C | .265 | .452 |
| PvuII: | ||
| Narrow: | ||
| Ins-A-C | .414 | .335 |
| Del-A-C | .323 | .084 |
| Broad: | ||
| Ins-A-C | .413 | .404 |
| Del-A-C | .325 | .097 |
| rs1345514: | ||
| Narrow: | ||
| C-A-C | .461 | .148 |
| T-A-C | .266 | .339 |
| Broad: | ||
| C-A-C | .465 | .097 |
| T-A-C | .265 | .574 |
| rs3735652: | ||
| Narrow: | ||
| G-A-C | .347 | .292 |
| C-A-C | .382 | .107 |
| Broad: | ||
| G-A-C | .359 | .158 |
| C-A-C | .371 | .289 |
| rs6460013: | ||
| Narrow: | ||
| G-A-C | .690 | .004 |
| T-A-C | .048 | … |
| Broad: | ||
| G-A-C | .690 | .011 |
| T-A-C | .050 | .896 |
| rs7794177: | ||
| Narrow: | ||
| C-A-C | .658 | .004 |
| G-A-C | .070 | .751 |
| Broad: | ||
| C-A-C | .656 | .012 |
| G-A-C | .072 | .901 |
| rs3824068: | ||
| Narrow: | ||
| C-A-C | .359 | .884 |
| T-A-C | .372 | .019 |
| Broad: | ||
| C-A-C | .364 | .504 |
| T-A-C | .372 | .076 |
| rs2361688: | ||
| Narrow: | ||
| G-A-C | .717 | .009 |
| A-A-C | .008 | … |
| Broad: | ||
| G-A-C | .716 | .004 |
| A-A-C | .009 | … |
| rs3824067: | ||
| Narrow: | ||
| T-A-C | .561 | .013 |
| A-A-C | .170 | .654 |
| Broad: | ||
| T-A-C | .560 | .056 |
| A-A-C | .188 | .655 |
| ss38341503: | ||
| Narrow: | ||
| A-C-C | .710 | .001 |
| A-C-T | .005 | … |
| Broad: | ||
| A-C-C | .716 | .001 |
| A-C-T | .009 | … |
| rs3808332: | ||
| Narrow: | ||
| A-C-T | .551 | .022 |
| A-C-C | .185 | .629 |
| Broad: | ||
| A-C-T | .553 | .045 |
| A-C-C | .186 | .505 |
| rs3808331: | ||
| Narrow: | ||
| A-C-T | .672 | .017 |
| A-C-C | .057 | .961 |
| Broad: | ||
| A-C-T | .675 | .012 |
| A-C-C | .057 | .660 |
| rs4717034: | ||
| Narrow: | ||
| A-C-C | .563 | .035 |
| A-C-T | .172 | .506 |
| Broad: | ||
| A-C-C | .557 | .114 |
| A-C-T | .181 | .260 |
| rs3808329: | ||
| Narrow: | ||
| A-C-A | .634 | .012 |
| A-C-G | .105 | .269 |
| Broad: | ||
| A-C-A | .642 | .008 |
| A-C-G | .097 | .652 |
a
The initial 167 AGRE families (Gharani et al. 2004).
b
Haplotype-specific P values (1 df) generated by PDTPHASEsum (Dudbridge 2003). Only P values for haplotypes with a frequency >5% are presented, because the test statistic is not considered to retain its asymptotic validity for rare haplotypes. For each analysis, only haplotypes with the core rs1861972-rs1861973 A-C alleles are displayed. The P values for common haplotypes (frequency >5%) that display P values of the same order of magnitude as those observed for the rs1861972-rs1861973 A-C haplotype are in bold italics.