Table 4 Results of SNP validation using SNaPshot™ and GoldenGate™ chemistries including a comparison of the genotype calls
SNP class and sub-class (GoldenGate clustering) | Number of SNPs | % genotypes with concordant allele calls | ||
|---|---|---|---|---|
SNaPshot | GoldenGate | Compared between genotyping systems1 | ||
Polymorphic | 70 | 62 | 38 | 80.45 |
3 clusters (1 sub-genome amplified) | N/A | 17 | 12 | 87.01 |
3 clusters (3 sub-genomes amplified) | N/A | 11 | 5 | 86.00 |
2 clusters | N/A | 20 | 13 | 80.15 |
5 clusters | N/A | 2 | 1 | 48.65 |
Dispersed | N/A | 12 | 7 | 71.71 |
Diagnostic | 4 | 3 | 1 | 97.67 |
Monomorphic | 15 | 16 | 7 | 39.11 |
Failed | 7 | 14 | 5 | N/A |
Total | 96 | 96 | 51 | 76.43 |