Table 4.
Metrics of performance among omics data classes for predicting valid synthetic lethal targets against SARS-CoV-2 infection. The total number of CRISPR-depleted non-redundant candidate SL targets is 738.
| Data class |
N candidate SL targets also CRISPR-depleted |
Enrichment of SL targets in CRISPR-depleted genes −log10(FDR-adjusted P-value) |
Sensitivity | Specificity | Precision |
|---|---|---|---|---|---|
| Virus-host PPI (BioID) | 600 | 85.79 | 0.58 | 0.72 | 0.1 |
| Virus-host PPI (AP) | 526 | 74.7 | 0.51 | 0.76 | 0.1 |
| Transcriptome (down) | 732 | 71.69 | 0.71 | 0.58 | 0.08 |
| Transcriptome (up & down) | 736 | 68.6 | 0.71 | 0.57 | 0.08 |
| Proteome (up & down) | 490 | 63.63 | 0.47 | 0.77 | 0.1 |
| Transcriptome (up) | 555 | 60.68 | 0.54 | 0.72 | 0.09 |
| Proteome (down) | 378 | 58.08 | 0.37 | 0.85 | 0.11 |
| Virus-host RPI | 188 | 48.94 | 0.18 | 0.95 | 0.16 |
| Phosphoproteome | 418 | 46.26 | 0.41 | 0.8 | 0.09 |
| Proteome (up) | 330 | 43.45 | 0.32 | 0.86 | 0.1 |
| RBP (up & down) | 125 | 31.78 | 0.12 | 0.97 | 0.16 |
| RBP (down) | 90 | 31.02 | 0.09 | 0.98 | 0.2 |
| Ubiquitinome | 268 | 28.68 | 0.26 | 0.87 | 0.1 |
| Cleavage | 93 | 27.41 | 0.09 | 0.98 | 0.18 |
| RBP (up) | 74 | 17.15 | 0.07 | 0.98 | 0.15 |
| Translatome (up & down) | 17 | 2.43 | 0.02 | 0.99 | 0.1 |
| Translatome (down) | 15 | 2.21 | 0.01 | 0.99 | 0.1 |
| Translatome (up) | 4 | 1.5 | 0 | 1 | 0.16 |