In vitro SNP performance assessed | Candidate genes | F0 | F1 | F2 | F3 | F4 | Total counts | % |
---|---|---|---|---|---|---|---|---|
# SNPs tested by the GGGT | 72 | 96 | 96 | 108 | 108 | 288 | 768 | - |
Average SNP Call Rate (%) | 91.0 | 95.2 | 90.0 | 94.9 | 95.0 | 97.8 | - | Â |
# SNP with Call rate ≥ 0.95 | 58 | 81 | 74 | 90 | 97 | 268 | 668 | 87.0 |
% SNP with Call rate ≥ 0.95 | 80.6 | 84.4 | 77.1 | 83.3 | 89.8 | 93.1 | - |  |
Average SNP GeneTrain score | 0.61 | 0.68 | 0.66 | 0.71 | 0.67 | 0.72 | - | Â |
# SNPs with GeneTrain score ≥ 0.40 | 64 | 90 | 90 | 100 | 101 | 278 | 723 | 94.1 |
% SNPs with GeneTrain score ≥ 0.40 | 88.9 | 93.8 | 93.8 | 92.6 | 93.5 | 96.5 | - |  |
Average SNP GC50 score | 0.57 | 0.59 | 0.59 | 0.64 | 0.62 | 0.67 | - | Â |
# SNPs with GC50 score ≥ 0.40 | 63 | 89 | 89 | 100 | 101 | 277 | 719 | 93.6 |
% SNPs with GC50 score ≥ 0.40 | 87.5 | 92.7 | 92.7 | 92.6 | 93.5 | 96.2 | - |  |
Average MAF of SNPs with MAF ≥ 0.05 | 0.26 | 0.24 | 0.25 | 0.26 | 0.25 | 0.27 | - |  |
# SNP with MAF > 0.05 | 51 | 48 | 55 | 75 | 74 | 205 | 508 | 66.1 |
% SNP with MAF > 0.05 | 70.8 | 50.0 | 57.3 | 69.4 | 68.5 | 71.2 | - | Â |