Table 4 The accuracy of secondary structure models predicted from tyrosyl-tRNA sequence (best values in bold)
From: New in silico approach to assessing RNA secondary structures with non-canonical base pairs
Method | PPV | TPR | MCC |
|---|---|---|---|
Variant I: Canonical and non-canonical base pairs | |||
RNAwolf | 0.71 | 0.44 | 0.56 |
MC-Fold-DP | 0.41 | 0.33 | 0.37 |
MC-Fold | 0.57 | 0.44 | 0.50 |
RC/Rp-1 | 0.94 | 0.74 | 0.83 |
RC/Rp-2 | 0.97 | 0.77 | 0.86 |
RC/Rp-3 | 0.94 | 0.77 | 0.85 |
Variant II: Canonical base pairs only | |||
RNAwolf | 0.80 | 0.76 | 0.78 |
MC-Fold-DP | 0.28 | 0.43 | 0.35 |
MC-Fold | 0.56 | 0.71 | 0.63 |
RC/Rp-1 | 0.95 | 1.00 | 0.98 |
RC/Rp-2 | 1.00 | 1.00 | 1.00 |
RC/Rp-3 | 1.00 | 1.00 | 1.00 |
Variant III: Non-canonical base pairs only, regardless of classification | |||
RNAwolf | 0.25 | 0.06 | 0.12 |
MC-Fold-DP | n/a | 0 | n/a |
MC-Fold | 0.67 | 0.11 | 0.27 |
RC/Rp-1 | 0.89 | 0.44 | 0.63 |
RC/Rp-2 | 0.90 | 0.50 | 0.67 |
RC/Rp-3 | 0.82 | 0.50 | 0.64 |
Variant IV: Non-canonical base pairs only, classification dependent | |||
RNAwolf | 0.25 | 0.06 | 0.12 |
MC-Fold-DP | n/a | 0 | n/a |
MC-Fold | 0.33 | 0.06 | 0.14 |
RC/Rp-1 | 0.78 | 0.39 | 0.55 |
RC/Rp-2 | 0.80 | 0.44 | 0.60 |
RC/Rp-3 | 0.55 | 0.33 | 0.43 |