Table 2 Results of replenishing missing labels on CollinsPPI wrt
From: Predicting protein functions using incomplete hierarchical labels
Metric | m(N m ) | PILL | ProDM | ProWL | LkNN | TPRw | Naive |
|---|---|---|---|---|---|---|---|
MicroF1 | 1(1526) | 93.91 ±0.11 | 83.30 ±0.30 | 90.31 ±0.08 | 44.07 ±0.14 | 50.00 ±0.12 | 29.00 ±0.01 |
|  | 3(4330) | 81.70 ±0.29 | 72.16 ±0.77 | 78.38 ±0.23 | 41.61 ±0.16 | 43.60 ±0.18 | 29.77 ±0.13 |
|  | 5(6580) | 70.53 ±0.31 | 60.10 ±1.01 | 66.61 ±0.16 | 37.54 ±0.21 | 36.79 ±0.13 | 30.09 ±0.06 |
MacroF1 | 1(1526) | 89.29 ±0.25 | 69.53 ±0.40 | 85.75 ±0.34 | 34.23 ±0.21 | 43.33 ±0.15 | 4.70 ±0.01 |
|  | 3(4330) | 70.19 ±0.63 | 60.78 ±1.73 | 69.03 ±0.46 | 29.23 ±0.48 | 35.45 ±0.39 | 5.06 ±0.04 |
|  | 5(6580) | 55.32 ±0.94 | 45.37 ±1.90 | 52.95 ±0.59 | 24.12 ±0.62 | 27.06 ±0.75 | 5.13 ±0.05 |
AvgROC | 1(1526) | 99.47 ±0.01 | 97.44 ±0.06 | 98.27 ±0.09 | 66.14 ±0.05 | 69.67 ±0.18 | 49.44 ±0.00 |
|  | 3(4330) | 97.77 ±0.16 | 93.86 ±0.44 | 93.35 ±0.18 | 64.86 ±0.11 | 64.93 ±0.21 | 49.44 ±0.00 |
|  | 5(6580) | 94.64 ±0.33 | 87.03 ±1.04 | 86.24 ±0.49 | 63.25 ±0.34 | 60.41 ±0.36 | 49.44 ±0.00 |
1-RankLoss | 1(1526) | 99.43 ±0.03 | 96.80 ±0.04 | 98.55 ±0.05 | 69.38 ±0.04 | 55.75 ±0.14 | 79.33 ±0.04 |
|  | 3(4330) | 97.58 ±0.11 | 92.15 ±0.26 | 94.62 ±0.17 | 66.09 ±0.27 | 46.90 ±0.47 | 76.72 ±0.22 |
|  | 5(6580) | 94.55 ±0.27 | 86.63 ±0.67 | 89.30 ±0.25 | 59.65 ±0.65 | 36.88 ±0.41 | 74.52 ±0.41 |
Fmax | 1(1526) | 90.88 ±0.07 | 76.28 ±0.31 | 80.49 ±0.34 | 42.74 ±0.09 | 58.43 ±0.36 | 28.32 ±0.00 |
|  | 3(4330) | 76.82 ±0.10 | 67.39 ±0.84 | 66.14 ±0.29 | 42.16 ±0.25 | 51.12 ±0.50 | 27.93 ±0.01 |
|  | 5(6580) | 66.11 ±0.50 | 56.26 ±4.01 | 57.76 ±0.52 | 40.39 ±0.37 | 44.01 ±0.53 | 27.04 ±0.00 |