Table 1 Validation results of each dataset and integration of 5 data sources
From: Integrating human omics data to prioritize candidate genes
| Â | Artificial linkage interval | Random control | Whole genome | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | TOP | AUC | FE | MRR | TOP | AUC | FE | MRR | TOP | AUC | FE | MRR | |
ALL (Lasso) | Leave one out | 62.47% | 90.86% | 68.09 | 8.90% | 57.42% | 90.78% | 57.42 | 8.34% | 29.34% | 90.21% | 2616.84 | 7.57% |
Ab initio | 61.48% | 90.61% | 67.01 | 10.98% | 56.58% | 90.49% | 56.58 | 8.87% | 27.87% | 89.16% | 2484.89 | 8.09% | |
ALL (Regular) | Leave one out | 56.96% | 89.92% | 64.25 | 11.20% | 53.69% | 90.24% | 53.69 | 9.98% | 24.16% | 89.01% | 2154.80 | 8.72% |
Ab initio | 55.47% | 89.52% | 63.74 | 11.60% | 52.64% | 90.02% | 52.64 | 9.65% | 23.11% | 88.16% | 2061.20 | 9.22% | |
PPI | Leave one out | 47.41% | 86.08% | 51.66 | 16.94% | 42.07% | 82.23% | 42.07 | 18.05% | 9.87% | 79.78% | 880.31 | 19.46% |
Ab initio | 44.82% | 84.45% | 48.85 | 17.95% | 39.29% | 80.02% | 39.29 | 20.29% | 9.16% | 79.05% | 816.98 | 20.08% | |
KEGG | Leave one out | 42.16% | 76.02% | 46.20 | 16.36% | 35.89% | 73.12% | 35.89 | 19.50% | 11.48% | 62.38% | 1023.90 | 12.93% |
Ab initio | 41.02% | 75.19% | 44.91 | 16.52% | 34.20% | 71.31% | 34.20 | 20.10% | 11.20% | 62.20% | 998.93 | 13.01% | |
GS | Leave one out | 40.34% | 79.08% | 43.97 | 18.59% | 40.20% | 74.07% | 40.20 | 15.80% | 10.64% | 67.26% | 948.98 | 15.09% |
Ab initio | 40.27% | 78.69% | 43.89 | 18.80% | 38.45% | 72.73% | 38.45 | 16.40% | 10.31% | 66.03% | 919.55 | 15.65% | |
GE | Leave one out | 23.25% | 74.30% | 25.34 | 31.15% | 17.44% | 69.04% | 17.44 | 29.51% | 1.75% | 67.61% | 156.08 | 28.79% |
Ab initio | 22.97% | 74.03% | 25.04 | 31.48% | 16.53% | 68.60% | 16.53 | 29.94% | 1.47% | 67.12% | 131.11 | 29.21% | |
GO | Leave one out | 24.65% | 76.99% | 26.86 | 24.94% | 20.24% | 69.18% | 22.24 | 23.51% | 8.05% | 61.74% | 717.98 | 22.63% |
Ab initio | 24.00% | 76.81% | 26.16 | 25.08% | 20.10% | 68.89% | 20.13 | 23.71% | 7.47% | 61.44% | 666.25 | 22.95% | |