Table 1 The performance of the SVMs that were trained with the top hundred genes as ranked by the Netrank on the development set and tested with the test set
From: Netrank: network-based approach for biomarker discovery
Cancer type | Precision | Recall | F1_score | Accuracy | AUC | No. samples | |||
|---|---|---|---|---|---|---|---|---|---|
Development set | Test set | ||||||||
Case | Control | Case | Control | ||||||
ACC | 0.99 | 0.95 | 0.97 | 0.99 | 0.95 | 57 | 2314 | 21 | 996 |
BLCA | 0.97 | 0.79 | 0.85 | 0.98 | 0.79 | 95 | 2276 | 41 | 976 |
BRCA | 0.97 | 0.97 | 0.97 | 0.98 | 0.97 | 618 | 1753 | 244 | 773 |
CESC | 0.94 | 0.95 | 0.94 | 0.99 | 0.97 | 91 | 2280 | 33 | 984 |
CHOL | 0.99 | 0.81 | 0.88 | 0.99 | 0.82 | 25 | 2346 | 11 | 1006 |
KICH | 0.99 | 0.92 | 0.96 | 0.99 | 0.93 | 44 | 2327 | 21 | 996 |
KIRP | 0.99 | 0.98 | 0.99 | 0.99 | 0.99 | 88 | 2283 | 43 | 974 |
LGG | 1 | 0.95 | 0.97 | 0.99 | 0.95 | 16 | 2355 | 11 | 1006 |
LIHC | 0.99 | 0.95 | 0.97 | 0.99 | 0.96 | 132 | 2239 | 67 | 950 |
LUAD | 0.99 | 0.95 | 0.97 | 0.99 | 0.95 | 213 | 2158 | 86 | 931 |
MESO | 0.97 | 0.89 | 0.93 | 0.99 | 0.9 | 54 | 2317 | 25 | 992 |
PAAD | 0.92 | 0.95 | 0.93 | 0.99 | 0.96 | 120 | 2251 | 36 | 981 |
PRAD | 0.99 | 0.99 | 0.99 | 0.99 | 0.99 | 141 | 2230 | 82 | 935 |
SARC | 0.98 | 0.94 | 0.96 | 0.99 | 0.94 | 166 | 2205 | 71 | 946 |
SKCM | 0.97 | 0.97 | 0.97 | 0.99 | 0.98 | 250 | 2121 | 99 | 918 |
TGCT | 0.98 | 0.98 | 0.98 | 0.99 | 0.99 | 95 | 2276 | 38 | 979 |
THYM | 0.99 | 0.97 | 0.98 | 0.99 | 0.97 | 83 | 2288 | 34 | 983 |
UCS | 0.99 | 0.71 | 0.79 | 0.98 | 0.71 | 38 | 2333 | 19 | 998 |
UVM | 0.97 | 0.99 | 0.98 | 0.99 | 1 | 61 | 2310 | 19 | 998 |