Table 2.
PICS parameter settings and results for individual disease site classifications. Silhouette cutoff for pathways based on their membership in other pathways. P-values are for the logrank statistic for Kaplan–Meier curve separation, and for the melanoma dataset, the two values are for the training and the test subsets.
| CANCER TYPE | PATHWAY SCORING METHOD | CLUSTERING TYPE | SILHOUETTE CUTOFF | MCUT | PATHWAYS & MODULES USED | GROUP 1 SIZE | GROUP 2 SIZE | P-VALUE* (<0.05) |
|---|---|---|---|---|---|---|---|---|
| Pancreatic ductal adenocarcinoma | NTC | K-means | 0.4 | 2.5 | 5 | 64 | 38 | 0.03 |
| Non-small cell lung carcinoma | GED | K-medoids | 0.67 | 50 | 44 | 35 | 47 | 0.02 |
| Adult germ cell carcinoma and seminoma | GED | K-means | 0.375 | 15 | 224 | 15 | 59 | 0.02 |
| Ovarian | GED | K-medoids | 0.7 | 40 | 43 | 125 | 60 | 0.01 |
| Giloblastoma | GED | K-medoids | 0.475 | 25 | 363 | 48 | 32 | 0.03 |
| Sub-optimally debulked ovarian | NTC | K-medoids | 0.775 | 15 | 14 | 61 | 34 | <0.01 |
| Melanoma | PCA | K-medoids | NA | 10 | 74 | 285 | 185 | 0.03, 0.04 |