Table 3.
Overall Results for the Comparison Between In Silico and In Vivo Gene Deletions
| Essential (118) | Slow (83) | MMD (564) | YPGal (564) | YPD (565) | YPDGE (565) | YPG (565) | YPE (565) | YPL (565) | All (4154) | |
|---|---|---|---|---|---|---|---|---|---|---|
| TP | 0 | 0 | 439 | 476 | 474 | 465 | 466 | 461 | 466 | 3247 |
| FP | 81 | 67 | 74 | 69 | 73 | 64 | 62 | 60 | 61 | 611 |
| TN | 37 | 16 | 35 | 7 | 3 | 17 | 23 | 23 | 22 | 183 |
| FN | 0 | 0 | 16 | 12 | 15 | 19 | 14 | 21 | 16 | 113 |
| Total | 118 | 83 | 564 | 564 | 565 | 565 | 565 | 565 | 565 | 4154 |
| Unique false | 81 | 3 | 17 | 4 | 15 | 7 | 2 | 6 | 4 | 139a |
| Correct rate | 31.4 | 19.3 | 84.0 | 85.6 | 84.4 | 85.3 | 86.5 | 85.7 | 86.4 | 82.6 |
| TP rate | — | — | 96.5 | 97.5 | 96.9 | 96.1 | 97.1 | 95.6 | 96.7 | 96.6 |
| FP rate | 68.6 | 80.7 | 73.4 | 85.5 | 96.1 | 79.0 | 72.9 | 72.3 | 73.5 | 77.0 |
The results for MMD and YPGal media include the slow growth predictions determined separately as experimentally deleterious phenotypes. Unique false is the number of false predictions that were specific to the particular experimental condition. Correct rate is the percentage of correct predictions out of all of the predictions. The true-positive rate (TP) is the percentage of TP predictions out of all predictions in which the experimental data shows normal growth. The false-positive (FP) rate is the percentage of FP predictions out of all predictions in which the experimental data shows retarded growth.
Total number of genes with a false prediction under only one condition in the whole study.