Table 6. LOOCV results for 165 polygenic disease, based on the combination of Tanimoto and mimMiner in different proportions.
Proportion of Tanimotoa | Best C valueb | MRR, % | Top-ranking genesc | TPR in the top 5, % | TPR in the top 10, % | TPR in the top 30, % |
---|---|---|---|---|---|---|
0.3 | -17 | 7.78 | 93 | 45.20 | 54.80 | 66.74 |
0.4 | -17 | 7.76 | 94 | 44.50 | 54.80 | 66.28 |
0.5 | -16 | 7.75 | 96 | 43.09 | 51.99 | 64.87 |
0.6 | -16 | 7.75 | 94 | 42.62 | 51.99 | 64.40 |
0.7 | -16 | 7.75 | 93 | 41.22 | 51.05 | 65.34 |
MRR, mean rank ratio; TPR, true positive rate
a proportion of mimMiner = 1.0—proportion of Tanimoto.
b the best C value will be obtained when maximum number of top-ranking genes is reached.
c it signifies the maximum number of target genes ranked on top of the candidate list. Totally, there are 427 target genes in LOOCV for polygenic diseases.