Table 1.
Reliability estimates of Mestortho, RBH and Orthostarpper
| Dataseta | Program | Meanb sensitivity (SD)c | Mean specificity (SD) |
|---|---|---|---|
| KOG | Mestortho | 0.941 (0.185) | 0.894 (0.243) |
| RBH | 0.838 (0.257) | 0.943 (0.213) | |
| Orthostrapper (700)d | 0.930 (0.228) | 0.353 (0.422) | |
| Orthostrapper (1000) | 0.779 (0.375) | 0.432 (0.461) | |
| EXProt-1 | Mestortho | 0.970 (0.096) | 0.773 (0.292) |
| RBH | 0.670 (0.205) | 0.715 (0.374) | |
| Orthostrapper (700) | 0.980 (0.051) | 0.132 (0.307) | |
| Orthostrapper (1000) | 0.753 (0.334) | 0.464 (0.457) | |
| EXProt-2 | Mestortho | 0.763 (0.222) | 0.287 (0.402) |
| RBH | 0.569 (0.234) | 0.675 (0.418) | |
| Orthostrapper (700) | 0.901 (0.341) | 0.301 (0.416) | |
| Orthostrapper (1000) | 0.646 (0.098) | 0.365 (0.394) |
aThree programs (Mestortho, RBH and Orthostrapper) were tested using 95 KOG and 21 EXProt datasets. Among two versions of the 21 EXProt datasets, True sequences of EXProt-1 were curated using an EC number identity criterion with the aid of KEGG orthology system and KAAS server while those of EXProt-2 were determined using tree reconciliation.
bThe average value for sensitivities (specificities) of 21 EXProt or 95 KOG datasets.
cThe SD of the mean values.
dThe value in parentheses indicates the bootstrap support level in the analysis of Orthostrapper. We conducted Orthostrapper analyses with bootstrap support levels ranging from 700 to 1000, at intervals of 50. For details, see Supplementary Table 2.