Table 2.
Estimating untyped alíele frequencies using haplotype sharing
| Subject's haplotype h1 | j | Reference haplotypes | hrj | arj | w(h1, hrj) | w(h1hrj)I[arj = 1] |
|---|---|---|---|---|---|---|
| …1010?0001… | 1 | …001110000… | …00110000… | 1 | 0 | 0 |
| 2 | …001110000… | …00110000… | 1 | 0 | 0 | |
| 3 | …000000000… | …00000000… | 0 | 0 | 0 | |
| 4 | …000000000… | …00000000… | 0 | 0 | 0 | |
| 5 | …000000000… | …00000000… | 0 | 0 | 0 | |
| 6 | …001010000… | …00100000… | 1 | 1 | 1 | |
| 7 | …001000000… | …00100000… | 0 | 1 | 0 | |
| 8 | …001000000… | …00100000… | 0 | 1 | 0 | |
| 9 | …001000000… | …00100000… | 0 | 1 | 0 | |
| 10 | …001110000… | …00111000… | 1 | 0 | 0 | |
| Total | 4 | 1 | ||||
Question mark denotes location of untyped locus in the study sample. Bold 0 or 1 denote alleles in the reference sample at the untyped locus. Underlined loci indicate regions of sharing between the subject's haplotype and the reference haplotypes about the untyped locus. An estimate of the frequency of the T alíele at the untyped locus among individuals with the subject's haplotype using the haplotype sharing weighted estimator (1/4) differs considerably from the frequency among all reference haplotypes (4/10).