Table 2 The results of binding sites prediction of GRNAs in sensitivity and positive predictive value on the datasets[12, 14] in comparison to inRNAs, IntaRNA, RNAup and RactIP
From: RNA-RNA interaction prediction using genetic algorithm
Sensitivity | PPV | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
RNA-RNA pairs | GRNAs | inRNAs | IntaRNA | RNAup | RactIP | GRNAs | inRNAs | IntaRNA | RNAup | RactIP |
Tar-Tar* | 100 | 100 | 100 | 100 | 81.5 | 100 | 83.3 | 83.3 | 83.3 | 57.9 |
R1inv-R2inv | 100 | 100 | 100 | 100 | 100 | 100 | 77.8 | 100 | 77.8 | 100 |
DIS-DIS | 100 | 100 | 100 | 100 | 75 | 100 | 100 | 100 | 100 | 78.3 |
CopA-CopT | 89.47 | 88.9 | 100 | 55.6 | 100 | 80.95 | 82.8 | 39.1 | 65.2 | 100 |
IncRNA54-RepZ | 71.44 | 100 | 73.8 | 75 | 100 | 100 | 88.9 | 85 | 85.7 | 83.3 |
DsrA-Rpos | 73.08 | 80.8 | 80.8 | 80.8 | 65.4 | 100 | 77.8 | 77.8 | 77.8 | 73.9 |
GcvB-argT | 87.5 | 95 | 95 | 90 | 95 | 100 | 86.4 | 95 | 94.7 | 100 |
GcvB-dppA | 94.12 | 100 | 100 | 100 | 94.1 | 100 | 85 | 58.6 | 45.9 | 59.3 |
GcvB-gltI | 91.67 | 75 | 0 | 0 | 100 | 95.65 | 50 | 0 | 0 | 100 |
GcvB-livK | 70.83 | 54 | 54.2 | 54.2 | 95.5 | 89.47 | 57 | 56.5 | 56.5 | 95.5 |
GcvB-livJ | 95.45 | 63.4 | 95.5 | 95.5 | 95.8 | 95.45 | 82.4 | 95.5 | 95.5 | 95.8 |
GcvB-oppA | 90.91 | 100 | 100 | 100 | 100 | 100 | 73.3 | 95.7 | 95.7 | 100 |
GcvB-STM4351 | 72 | 76 | 76 | 88 | 88 | 100 | 100 | 90.5 | 95.7 | 100 |
IstR-tisAB | 69.44 | 72.2 | 87.9 | 66.7 | 77.8 | 100 | 100 | 96 | 100 | 100 |
MicA-ompA | 93.75 | 100 | 100 | 100 | 87.5 | 100 | 100 | 100 | 100 | 87.5 |
MicA-lamB | 82.61 | 100 | 100 | 82.6 | 56.5 | 90.48 | 100 | 82.1 | 70.4 | 86.7 |
MicC-ompC | 90.91 | 100 | 100 | 72.7 | 72.7 | 100 | 100 | 53.7 | 41 | 88.9 |
MicF-ompF | 100 | 96 | 96 | 80 | 83.3 | 100 | 96 | 96 | 95.2 | 76.9 |
OxyS-fhlA | 80 | 81.3 | 50 | 37.5 | 56.3 | 86.96 | 100 | 100 | 100 | 81.8 |
RyhB-sdhD | 58.82 | 61.8 | 58.8 | 79.4 | 82.4 | 95.24 | 95.5 | 100 | 79.4 | 82.4 |
RyhB-sodB | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 81.8 | 90 | 39.1 |
SgrS-ptsG | 60.87 | 56.6 | 73.9 | 73.9 | 83.9 | 87.5 | 76.5 | 100 | 100 | 100 |
Spot42-galK | 61.36 | 43.2 | 40.9 | 52.3 | 68.2 | 87.1 | 76 | 64.3 | 52.3 | 69.8 |
Average | 84.1 | 84.5 | 81.9 | 77.6 | 84.7 | 96.03 | 86.5 | 80.5 | 78.4 | 85.1 |