Table 3 The averages of the number of estimated edges, the five performance measures and the computation time (sec.) over 50 datasets
From: Enhanced construction of gene regulatory networks using hub gene information
p | n | Method | \(|\hat {E}|\) | SEN | SPE | FDR | MISR | MCC | Time |
|---|---|---|---|---|---|---|---|---|---|
231 | 115 | GeneNet | 115.98 | 38.39 | 99.98 | 3.94 | 0.69 | 60.46 | 0.56 |
(|E|=290) | Â | Â | (1.27) | (0.39) | (0.00) | (0.26) | (0.00) | (0.30) | (0.01) |
| Â | Â | NS | 54.28 | 18.71 | 100.00 | 0.04 | 0.89 | 42.99 | 0.34 |
| Â | Â | Â | (0.85) | (0.29) | (0.00) | (0.04) | (0.00) | (0.34) | (0.01) |
| Â | Â | SPACE | 160.38 | 46.90 | 99.91 | 14.78 | 0.67 | 62.85 | 0.36 |
| Â | Â | Â | (2.39) | (0.43) | (0.01) | (0.69) | (0.00) | (0.28) | (0.01) |
| Â | Â | ESPACE | 172.74 | 49.41 | 99.89 | 16.95 | 0.66 | 63.74 | 0.13 |
| Â | Â | Â | (1.58) | (0.39) | (0.00) | (0.41) | (0.00) | (0.31) | (0.00) |
| Â | Â | GLASSO | 85.78 | 28.26 | 99.99 | 3.87 | 0.80 | 51.25 | 0.03 |
| Â | Â | Â | (3.64) | (1.12) | (0.00) | (0.41) | (0.01) | (1.03) | (0.00) |
| Â | Â | GLASSO-SF | 76.64 | 25.19 | 99.99 | 4.03 | 0.83 | 48.31 | 1.06 |
| Â | Â | Â | (3.26) | (1.01) | (0.00) | (0.46) | (0.01) | (0.98) | (0.02) |
| Â | Â | EGLASSO | 86.50 | 28.63 | 99.99 | 3.51 | 0.79 | 51.71 | 0.04 |
| Â | Â | Â | (3.54) | (1.11) | (0.00) | (0.39) | (0.01) | (1.05) | (0.00) |
| Â | Â | PCACMI | 73.42 | 25.14 | 100.00 | 0.72 | 0.82 | 49.70 | 4.16 |
| Â | Â | Â | (0.94) | (0.33) | (0.00) | (0.14) | (0.00) | (0.34) | (0.05) |
| Â | Â | CMI2NI | 73.42 | 25.17 | 100.00 | 0.62 | 0.82 | 49.75 | 6.25 |
| Â | Â | Â | (0.94) | (0.33) | (0.00) | (0.13) | (0.00) | (0.34) | (0.07) |
| Â | 231 | GeneNet | 173.78 | 56.66 | 99.96 | 5.38 | 0.51 | 72.99 | 0.74 |
| Â | Â | Â | (1.21) | (0.28) | (0.00) | (0.30) | (0.00) | (0.18) | (0.01) |
| Â | Â | NS | 128.10 | 44.15 | 100.00 | 0.05 | 0.61 | 66.22 | 0.97 |
| Â | Â | Â | (0.54) | (0.19) | (0.00) | (0.03) | (0.00) | (0.14) | (0.01) |
| Â | Â | SPACE | 235.54 | 68.37 | 99.86 | 15.62 | 0.49 | 75.68 | 0.60 |
| Â | Â | Â | (2.20) | (0.35) | (0.01) | (0.50) | (0.00) | (0.22) | (0.00) |
| Â | Â | ESPACE | 235.86 | 69.35 | 99.87 | 14.55 | 0.47 | 76.72 | 0.23 |
| Â | Â | Â | (1.99) | (0.32) | (0.01) | (0.49) | (0.00) | (0.23) | (0.01) |
| Â | Â | GLASSO | 222.38 | 64.97 | 99.87 | 15.00 | 0.51 | 74.00 | 0.07 |
| Â | Â | Â | (2.62) | (0.47) | (0.01) | (0.54) | (0.00) | (0.20) | (0.00) |
| Â | Â | GLASSO-SF | 176.66 | 56.42 | 99.95 | 7.12 | 0.52 | 72.13 | 0.70 |
| Â | Â | Â | (2.11) | (0.35) | (0.01) | (0.52) | (0.00) | (0.24) | (0.02) |
| Â | Â | EGLASSO | 222.86 | 65.68 | 99.88 | 14.26 | 0.50 | 74.74 | 0.09 |
| Â | Â | Â | (2.57) | (0.46) | (0.01) | (0.54) | (0.00) | (0.21) | (0.01) |
| Â | Â | PCACMI | 74.28 | 25.61 | 100.00 | 0.02 | 0.81 | 50.36 | 6.23 |
| Â | Â | Â | (0.79) | (0.27) | (0.00) | (0.02) | (0.00) | (0.27) | (0.13) |
| Â | Â | CMI2NI | 74.28 | 25.61 | 100.00 | 0.02 | 0.81 | 50.36 | 7.99 |
| Â | Â | Â | (0.79) | (0.27) | (0.00) | (0.02) | (0.00) | (0.27) | (0.11) |