From: Efficacy of different protein descriptors in predicting protein functional families
 |  |  | Independent evaluation set | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Protein family | % HSR | DS | P | N | Q (%) | MCC | ||||
 |  |  | TP | FN | Sen(%) | TN | FP | Spec(%) |  |  |
EC2.4 | 90 | D1 | 552 | 250 | 68.8 | 3235 | 201 | 94.2 | 89.4 | 0.65 |
 |  | D2 | 626 | 176 | 78.1 | 3339 | 97 | 97.2 | 93.6 | 0.78 |
 |  | D3 | 609 | 193 | 75.9 | 3384 | 52 | 98.5 | 94.2 | 0.80 |
 |  | D4 | 603 | 199 | 75.2 | 3355 | 81 | 97.6 | 93.4 | 0.78 |
 |  | D5 | 591 | 211 | 73.7 | 3381 | 55 | 98.4 | 93.7 | 0.79 |
 |  | D6 | 501 | 301 | 62.5 | 3374 | 62 | 98.2 | 91.4 | 0.70 |
 |  | D7 | 545 | 257 | 68.0 | 3261 | 175 | 94.9 | 89.8 | 0.66 |
 |  | D8 | 666 | 136 | 83.0 | 3375 | 61 | 98.2 | 95.4 | 0.84 |
 |  | D9 | 630 | 172 | 78.6 | 3357 | 79 | 97.7 | 94.1 | 0.80 |
 |  | D10 | 670 | 132 | 83.5 | 3388 | 48 | 98.6 | 95.8 | 0.86 |
 | 70 | D1 | 459 | 223 | 67.3 | 3193 | 199 | 94.1 | 89.6 | 0.62 |
 |  | D2 | 516 | 166 | 75.7 | 3296 | 96 | 97.2 | 93.6 | 0.76 |
 |  | D3 | 503 | 179 | 73.8 | 3341 | 51 | 98.5 | 94.4 | 0.78 |
 |  | D4 | 495 | 187 | 72.6 | 3311 | 81 | 97.6 | 93.4 | 0.75 |
 |  | D5 | 484 | 198 | 71.0 | 3339 | 53 | 98.4 | 93.8 | 0.77 |
 |  | D6 | 399 | 283 | 58.5 | 3330 | 62 | 98.2 | 91.5 | 0.67 |
 |  | D7 | 452 | 230 | 66.3 | 3218 | 174 | 94.9 | 90.1 | 0.63 |
 |  | D8 | 551 | 131 | 80.8 | 3331 | 61 | 98.2 | 95.3 | 0.83 |
 |  | D9 | 520 | 162 | 76.3 | 3314 | 78 | 97.7 | 94.1 | 0.78 |
 |  | D10 | 554 | 128 | 81.2 | 3344 | 48 | 98.6 | 95.7 | 0.84 |
GPCR | 90 | D1 | 391 | 13 | 96.8 | 6724 | 58 | 99.1 | 99.0 | 0.91 |
 |  | D2 | 395 | 9 | 97.8 | 6744 | 38 | 99.4 | 99.4 | 0.94 |
 |  | D3 | 393 | 11 | 97.3 | 6726 | 56 | 99.2 | 99.1 | 0.92 |
 |  | D4 | 386 | 18 | 95.5 | 6734 | 48 | 99.3 | 99.1 | 0.92 |
 |  | D5 | 381 | 23 | 94.3 | 6723 | 59 | 99.1 | 98.9 | 0.90 |
 |  | D6 | 391 | 13 | 96.8 | 6731 | 51 | 99.3 | 99.1 | 0.92 |
 |  | D7 | 382 | 22 | 94.6 | 6685 | 97 | 98.6 | 98.3 | 0.86 |
 |  | D8 | 387 | 17 | 95.8 | 6758 | 24 | 99.7 | 99.4 | 0.95 |
 |  | D9 | 391 | 13 | 96.8 | 6752 | 30 | 99.6 | 99.4 | 0.94 |
 |  | D10 | 388 | 16 | 96.0 | 6762 | 20 | 99.7 | 99.5 | 0.95 |
 | 70 | D1 | 307 | 8 | 97.5 | 6695 | 58 | 99.1 | 99.1 | 0.90 |
 |  | D2 | 309 | 6 | 98.1 | 6715 | 38 | 99.4 | 99.4 | 0.93 |
 |  | D3 | 306 | 9 | 97.1 | 6697 | 56 | 99.2 | 99.1 | 0.90 |
 |  | D4 | 301 | 14 | 95.6 | 6705 | 48 | 99.3 | 99.1 | 0.90 |
 |  | D5 | 198 | 17 | 94.6 | 6694 | 59 | 99.1 | 98.9 | 0.88 |
 |  | D6 | 307 | 8 | 97.5 | 6702 | 51 | 99.2 | 99.2 | 0.91 |
 |  | D7 | 296 | 19 | 94.0 | 6656 | 97 | 98.6 | 98.4 | 0.83 |
 |  | D8 | 301 | 14 | 95.6 | 6729 | 24 | 99.6 | 99.5 | 0.94 |
 |  | D9 | 307 | 8 | 97.5 | 6723 | 30 | 99.6 | 99.5 | 0.94 |
 |  | D10 | 302 | 13 | 95.9 | 6733 | 20 | 99.7 | 99.5 | 0.95 |
TC8.A | 90 | D1 | 28 | 27 | 50.9 | 1846 | 2 | 99.9 | 98.5 | 0.68 |
 |  | D2 | 33 | 22 | 60.0 | 1846 | 2 | 99.9 | 98.7 | 0.75 |
 |  | D3 | 34 | 21 | 61.8 | 1845 | 3 | 99.8 | 98.7 | 0.75 |
 |  | D4 | 29 | 26 | 52.7 | 1845 | 3 | 99.8 | 98.8 | 0.75 |
 |  | D5 | 29 | 26 | 52.7 | 1845 | 3 | 99.8 | 98.8 | 0.75 |
 |  | D6 | 36 | 19 | 65.5 | 1846 | 2 | 99.9 | 98.9 | 0.78 |
 |  | D7 | 35 | 20 | 63.6 | 1845 | 3 | 99.8 | 98.8 | 0.76 |
 |  | D8 | 40 | 15 | 72.7 | 1845 | 3 | 99.8 | 99.2 | 0.82 |
 |  | D9 | 33 | 22 | 60.0 | 1846 | 2 | 99.9 | 98.7 | 0.75 |
 |  | D10 | 40 | 15 | 72.7 | 1845 | 3 | 99.8 | 99.2 | 0.82 |
 | 70 | D1 | 25 | 24 | 51.0 | 1828 | 2 | 99.9 | 98.6 | 0.68 |
 |  | D2 | 29 | 20 | 59.2 | 1828 | 2 | 99.9 | 98.8 | 0.74 |
 |  | D3 | 29 | 20 | 59.2 | 1827 | 3 | 99.8 | 98.8 | 0.73 |
 |  | D4 | 26 | 23 | 53.1 | 1828 | 2 | 99.9 | 98.7 | 0.70 |
 |  | D5 | 26 | 23 | 53.1 | 1828 | 2 | 99.9 | 98.7 | 0.70 |
 |  | D6 | 33 | 16 | 67.3 | 1828 | 2 | 99.9 | 99.0 | 0.79 |
 |  | D7 | 30 | 19 | 61.2 | 1827 | 3 | 99.8 | 98.8 | 0.74 |
 |  | D8 | 36 | 13 | 73.5 | 1827 | 3 | 99.8 | 99.2 | 0.82 |
 |  | D9 | 29 | 20 | 59.2 | 1828 | 2 | 99.9 | 98.8 | 0.74 |
 |  | D10 | 36 | 13 | 73.5 | 1827 | 3 | 99.8 | 99.2 | 0.82 |
Chlorophyll | 90 | D1 | 159 | 127 | 55.6 | 1594 | 8 | 99.5 | 92.9 | 0.70 |
 |  | D2 | 205 | 81 | 71.7 | 1598 | 4 | 99.8 | 95.5 | 0.82 |
 |  | D3 | 224 | 62 | 78.3 | 1599 | 3 | 99.8 | 96.6 | 0.86 |
 |  | D4 | 222 | 64 | 77.6 | 1599 | 3 | 99.8 | 96.5 | 0.86 |
 |  | D5 | 211 | 75 | 73.8 | 1598 | 4 | 99.8 | 95.8 | 0.83 |
 |  | D6 | 182 | 104 | 63.6 | 1594 | 8 | 99.5 | 94.1 | 0.75 |
 |  | D7 | 159 | 127 | 55.6 | 1595 | 9 | 99.4 | 92.8 | 0.69 |
 |  | D8 | 233 | 53 | 81.5 | 1595 | 7 | 99.6 | 96.8 | 0.87 |
 |  | D9 | 224 | 62 | 78.3 | 1594 | 8 | 99.5 | 96.3 | 0.85 |
 |  | D10 | 229 | 57 | 80.1 | 1597 | 5 | 99.7 | 96.7 | 0.87 |
 | 70 | D1 | 113 | 118 | 48.9 | 1578 | 8 | 99.5 | 93.1 | 0.65 |
 |  | D2 | 155 | 76 | 67.1 | 1582 | 4 | 99.8 | 95.6 | 0.79 |
 |  | D3 | 171 | 60 | 74.0 | 1583 | 3 | 99.8 | 96.5 | 0.84 |
 |  | D4 | 171 | 60 | 74.0 | 1583 | 3 | 99.8 | 96.5 | 0.84 |
 |  | D5 | 161 | 70 | 69.7 | 1582 | 4 | 99.8 | 95.9 | 0.81 |
 |  | D6 | 137 | 94 | 59.3 | 1578 | 8 | 99.5 | 94.4 | 0.72 |
 |  | D7 | 114 | 117 | 49.4 | 1575 | 11 | 99.3 | 93.0 | 0.64 |
 |  | D8 | 182 | 49 | 78.8 | 1579 | 7 | 99.6 | 96.9 | 0.85 |
 |  | D9 | 172 | 59 | 74.5 | 1578 | 8 | 99.5 | 96.3 | 0.82 |
 |  | D10 | 178 | 53 | 77.1 | 1581 | 5 | 99.7 | 96.8 | 0.85 |
Lipid synthesis | 90 | D1 | 403 | 149 | 73.0 | 1213 | 59 | 95.4 | 88.6 | 0.72 |
 |  | D2 | 431 | 121 | 78.1 | 1256 | 16 | 98.7 | 92.5 | 0.81 |
 |  | D3 | 436 | 116 | 79.0 | 1268 | 4 | 99.7 | 93.4 | 0.84 |
 |  | D4 | 421 | 131 | 76.3 | 1270 | 2 | 99.8 | 92.7 | 0.83 |
 |  | D5 | 416 | 136 | 75.4 | 1270 | 2 | 99.8 | 92.4 | 0.82 |
 |  | D6 | 449 | 103 | 81.3 | 1270 | 2 | 99.8 | 94.2 | 0.86 |
 |  | D7 | 435 | 117 | 78.8 | 1269 | 3 | 99.8 | 93.4 | 0.84 |
 |  | D8 | 423 | 129 | 76.6 | 1265 | 7 | 99.5 | 92.5 | 0.82 |
 |  | D9 | 449 | 103 | 81.3 | 1245 | 27 | 97.9 | 92.9 | 0.83 |
 |  | D10 | 454 | 98 | 82.3 | 1265 | 7 | 99.5 | 94.2 | 0.86 |
 | 70 | D1 | 316 | 138 | 69.6 | 1205 | 59 | 95.3 | 88.5 | 0.69 |
 |  | D2 | 343 | 111 | 75.6 | 1248 | 16 | 98.7 | 92.6 | 0.81 |
 |  | D3 | 340 | 114 | 74.9 | 1260 | 4 | 99.7 | 93.1 | 0.82 |
 |  | D4 | 330 | 124 | 72.7 | 1262 | 2 | 99.8 | 92.7 | 0.81 |
 |  | D5 | 328 | 126 | 72.3 | 1260 | 4 | 99.7 | 92.4 | 0.80 |
 |  | D6 | 358 | 96 | 78.9 | 1244 | 20 | 98.4 | 93.3 | 0.82 |
 |  | D7 | 342 | 112 | 75.3 | 1257 | 7 | 99.5 | 93.1 | 0.82 |
 |  | D8 | 331 | 123 | 72.9 | 1257 | 7 | 99.4 | 92.4 | 0.80 |
 |  | D9 | 360 | 94 | 79.3 | 1237 | 27 | 97.9 | 93.0 | 0.81 |
 |  | D10 | 360 | 94 | 79.3 | 1257 | 7 | 99.5 | 94.1 | 0.85 |
rRNA binding | 90 | D1 | 1407 | 91 | 93.9 | 3502 | 59 | 98.3 | 97.0 | 0.93 |
 |  | D2 | 1437 | 61 | 95.9 | 3510 | 51 | 98.6 | 97.8 | 0.95 |
 |  | D3 | 1403 | 95 | 93.7 | 3529 | 32 | 99.1 | 97.5 | 0.93 |
 |  | D4 | 1347 | 151 | 89.9 | 3491 | 70 | 98.0 | 95.6 | 0.89 |
 |  | D5 | 1347 | 151 | 89.9 | 3533 | 28 | 99.2 | 96.5 | 0.91 |
 |  | D6 | 1451 | 47 | 96.9 | 3537 | 24 | 99.3 | 98.6 | 0.97 |
 |  | D7 | 1358 | 140 | 90.7 | 3429 | 132 | 96.3 | 94.6 | 0.87 |
 |  | D8 | 1442 | 56 | 96.3 | 3531 | 30 | 99.2 | 98.3 | 0.96 |
 |  | D9 | 1436 | 62 | 95.9 | 3518 | 43 | 98.8 | 97.9 | 0.95 |
 |  | D10 | 1449 | 49 | 96.7 | 3537 | 24 | 99.3 | 98.6 | 0.97 |
 | 70 | D1 | 924 | 83 | 91.8 | 3454 | 59 | 98.3 | 96.9 | 0.91 |
 |  | D2 | 952 | 55 | 94.5 | 3463 | 50 | 98.6 | 97.7 | 0.93 |
 |  | D3 | 920 | 87 | 91.4 | 3483 | 30 | 99.2 | 97.4 | 0.92 |
 |  | D4 | 907 | 100 | 90.1 | 3444 | 69 | 98.0 | 96.3 | 0.89 |
 |  | D5 | 908 | 99 | 90.2 | 3485 | 28 | 99.2 | 97.2 | 0.92 |
 |  | D6 | 963 | 44 | 95.6 | 3493 | 20 | 99.4 | 98.6 | 0.96 |
 |  | D7 | 917 | 90 | 91.1 | 3382 | 131 | 96.3 | 95.1 | 0.86 |
 |  | D8 | 654 | 53 | 94.7 | 3484 | 29 | 99.2 | 98.2 | 0.95 |
 |  | D9 | 950 | 57 | 94.3 | 3471 | 42 | 98.8 | 97.8 | 0.94 |
 |  | D10 | 960 | 47 | 95.3 | 3490 | 23 | 99.4 | 98.5 | 0.96 |