Table 5 Overlap between top genes and gene sets for different classifiers
Classifier | # | MSigDB set | p-value | matches | set size |
|---|---|---|---|---|---|
CC | 1 | GNF2_MKI67 | < l.00 × l0-40 | 31 | 47 |
|  | 2 | GNF2_TTK | < l.00 × l0-40 | 29 | 57 |
|  | 3 | GNF2_CCNA2 | < l.00 × 10-40 | 48 | 99 |
|  | 4 | GNF2_HMMR | < 1.00 × 10-40 | 42 | 78 |
|  | 5 | GNF2_SMC2L1 | < 1.00 × 10-40 | 26 | 51 |
|  | 6 | GNF2_CDC20 | < 1.00 × 10-40 | 46 | 91 |
|  | 7 | GNF2_ESPL1 | < 1.00 × 10-40 | 27 | 58 |
|  | 8 | GNF2_H2AFX | < 1.00 × 10-40 | 24 | 54 |
|  | 9 | GNF2_RRM2 | < 1.00 × 10-40 | 32 | 68 |
|  | 10 | chrlqll | 2.32 × 10-6 | 2 | 4 |
SVM | 1 | chr7q12 | 6.23 × 104 | 1 | 1 |
| Â | 2 | chr3qll | 1.00 | 0 | 8 |
| Â | 3 | chrxq | 1.00 | 0 | 2 |
|  | 4 | BYSTRYKH_RUNX1_TARGETS_GLO-CUS | 8.06 × 10-3 | 1 | 13 |
|  | 5 | TESTIS_EXPRESSED _GENES | 7.28 × 10-7 | 4 | 107 |
| Â | 6 | chr22q | 1.00 | 0 | 6 |
|  | 7 | REGULATION_OF_G_PROTEIN_COU-PLED_RECEPTOR_PROTEIN_SIGNAL-ING_PATHWAY | 4.28 × 10-4 | 2 | 48 |
| Â | 8 | chr11p14 | 1.00 | 0 | 20 |
| Â | 9 | TERCPATHWAY | 1.00 | 0 | 15 |
|  | 10 | chrlq41 | 2.02 × 10-4 | 2 | 33 |
LR | 1 | chrSqll | 1.00 | 0 | 8 |
| Â | 2 | chr22q | 1.00 | 0 | 6 |
| Â | 3 | TERCPATHWAY | 1.00 | 0 | 15 |
| Â | 4 | chrxq | 1.00 | 0 | 2 |
|  | 5 | BYSTRYKH_RUNX1_TARGETS_GLO-CUS | 8.06 × 10-3 | 1 | 13 |
| Â | 6 | HSA00130_UBIQUINONE_BIOSYNTHE-SIS | 1.00 | 0 | 8 |
| Â | 7 | chr20p | 1.00 | 0 | 2 |
|  | 8 | chrlq41 | 1.29 × 10-6 | 3 | 33 |
| Â | 9 | chr3q12 | 1.00 | 0 | 23 |
| Â | 10 | BETA_TUBULIN_BINDING | 1.00 | 0 | 12 |