Table 2 Prediction accuracy of competitive RNA-RNA binding sites prediction methods.
Sensitivity | PPV | F-measure | |||||||
|---|---|---|---|---|---|---|---|---|---|
RNA-RNA interaction pairs | inRNAs | IntaRNA | RNAup | inRNAs | IntaRNA | RNAup | inRNAs | IntaRNA | RNAup |
CopA-CopT | 0.889 | 1.000 | 0.556 | 0.828 | 0.391 | 0.652 | 0.857 | 0.562 | 0.600 |
DIS-DIS | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 |
IncRNA54-RepZ | 1.000 | 0.738 | 0.750 | 0.889 | 0.850 | 0.857 | 0.941 | 0.790 | 0.800 |
R1inv-R2inv | 1.000 | 1.000 | 1.000 | 0.778 | 1.000 | 0.778 | 0.875 | 1.000 | 0.875 |
Tar-Tar* | 1.000 | 1.000 | 1.000 | 0.833 | 0.833 | 0.833 | 0.909 | 0.909 | 0.909 |
DsrA-RpoS | 0.808 | 0.808 | 0.808 | 0.778 | 0.778 | 0.778 | 0.793 | 0.793 | 0.793 |
GcvB-argT | 0.950 | 0.950 | 0.900 | 0.864 | 0.950 | 0.947 | 0.905 | 0.950 | 0.923 |
GcvB-dppA | 1.000 | 1.000 | 1.000 | 0.850 | 0.586 | 0.459 | 0.919 | 0.739 | 0.629 |
GcvB-gltI | 0.750 | 0.000 | 0.000 | 0.500 | 0.000 | 0.000 | 0.600 | 0.000 | 0.000 |
GcvB-livJ | 0.634 | 0.955 | 0.955 | 0.824 | 0.955 | 0.955 | 0.717 | 0.955 | 0.955 |
GcvB-livK | 0.540 | 0.542 | 0.542 | 0.570 | 0.565 | 0.565 | 0.555 | 0.553 | 0.553 |
GcvB-oppA | 1.000 | 1.000 | 1.000 | 0.733 | 0.957 | 0.957 | 0.846 | 0.978 | 0.978 |
GcvB-STM4351 | 0.760 | 0.760 | 0.880 | 1.000 | 0.905 | 0.957 | 0.864 | 0.826 | 0.917 |
IstR-tisAB | 0.722 | 0.879 | 0.667 | 1.000 | 0.960 | 1.000 | 0.839 | 0.918 | 0.800 |
MicA-ompA | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 | 1.000 |
MicA-lamB | 1.000 | 1.000 | 0.826 | 1.000 | 0.821 | 0.704 | 1.000 | 0.902 | 0.760 |
MicC-ompC | 1.000 | 1.000 | 0.727 | 1.000 | 0.537 | 0.410 | 1.000 | 0.699 | 0.524 |
MicF-ompF | 0.960 | 0.960 | 0.800 | 0.960 | 0.960 | 0.952 | 0.960 | 0.960 | 0.869 |
OxyS-fhlA | 0.813 | 0.500 | 0.375 | 1.000 | 1.000 | 1.000 | 0.897 | 0.667 | 0.545 |
RyhB-sdhD | 0.618 | 0.588 | 0.794 | 0.955 | 1.000 | 0.794 | 0.750 | 0.741 | 0.794 |
RyhB-sodB | 1.000 | 1.000 | 1.000 | 1.000 | 0.818 | 0.900 | 1.000 | 0.900 | 0.947 |
SgrS-ptsG | 0.566 | 0.739 | 0.739 | 0.765 | 1.000 | 1.000 | 0.651 | 0.850 | 0.850 |
Spot42-galK | 0.432 | 0.409 | 0.523 | 0.760 | 0.643 | 0.523 | 0.551 | 0.500 | 0.523 |
Average | 0.845 | 0.819 | 0.776 | 0.865 | 0.805 | 0.784 | 0.845 | 0.791 | 0.763 |