Table 3.
Genotype determination of 6 SNPs in 14 subjects, by direct sequencing of both strands, and comparison with results from end-point fluorescent PCR analysis and the novel BCGA (real-time fluorescent PCR)
| SNP | Subjects, n | Correct calls, n | |||
|---|---|---|---|---|---|
| AA | AB | BB | End-point | BCGA | |
| ApoE −219 | 3 | 4 | 7 | 14 | 14 |
| IL-1 alpha −889 | 7 | 5 | 2 | 13 | 14 |
| IL-1 beta −511 | 5 | 5 | 4 | 14 | 14 |
| IL-6 −174 | 7 | 6 | 1a | 14 | 14 |
| TNF alpha −238 | 0 | 2 | 12 | 14 | 14 |
| TNF alpha −308 | 11 | 3 | 0 | 3 | 14 |
aThis subject corresponds to sample 24, the only BB homozygote found for this SNP; thus despite an incalculable silhouette width, the genotype calls at end-point and BCGA analysis were correct.