Table 3.
Summary of accuracy of DGV using low-density assays derived by PLSR
| Test set | SNP selection | Number of SNP | |||||
|---|---|---|---|---|---|---|---|
| 5,000 | 3,000 | 1,000 | 500 | 300 | 100 | ||
| Bulls | Trait-specific assay | ||||||
| 89 | 85 | 84 | 78 | 72 | 59 | ||
| Common assay of evenly spaced SNP | |||||||
| ASI | 88 | 86 | 68 | 67 | 65 | 32 | |
| APR | 92 | 86 | 68 | 67 | 65 | 32 | |
| MAF | 86 | 80 | 61 | 62 | 58 | 40 | |
| Cows | Trait-specific assay | ||||||
| 98 | 96 | 88 | 80 | 80 | 72 | ||
| Common assay of evenly spaced SNP | |||||||
| ASI | 94 | 92 | 85 | 75 | 69 | 47 | |
| APR | 92 | 90 | 79 | 77 | 69 | 52 | |
| MAF | 94 | 93 | 78 | 79 | 57 | 42 | |
Accuracy of prediction is shown as percentage of the accuracy obtained with 42,576 SNP, averaged over nine traits for bulls and four traits for cows.