Table 3.
Summary of phenotype predictions by iRhto1108.
| Prediction | Statistics |
|---|---|
| Gene essentialitya | |
| G-G | 772 (72%) |
| G-NG | 120 (11%) |
| NG-G | 47 (4%) |
| NG-NG | 140 (13%) |
| Accuracy | 84.5% |
| Sensitivity | 94.3% |
| Specificity | 53.8% |
| Growth viability | |
| As carbon source | 13 |
| As nitrogen source (positive) | 5 |
| As nitrogen source (negative) | 1 |
| Mutant auxotrophy | |
| Arginine and/or methionine | 18/22 |
| Growth yield prediction | |
| d-Glucose | 4 validations |
| d-Xylose | 9 validations |
| Production yield prediction | |
| d-Arabitol | 6 validations |
a
Agreements or disagreements between model predictions and gene essentiality data are classified into four groups: G-G, G-NG, NG-G, and NG-NG; the first part of the group is in silico result, the second part is in vivo result, “G” stands for growth, and “NG” stands for non-growth. Accuracy = (G-G + NG-NG)/Total. Sensitivity = G-G/(G-G + NG-G). Specificity = NG-NG/(NG-NG + G-NG).