Table 1.
Experimental results on the remote homology detection task for all competing methods using the triple(1,3) kernel.
| neighborhood (no clustering) | clustered neighborhood | |||||
| dataset | ROC | ROC50 | p-value | ROC | ROC50 | p-value |
| PDB | ||||||
| full sequence | .9476 | .7582 | - | .9515 | .7633 | - |
| region | .9708 | .8265 | .0069 | .9716 | .8246 | .0045 |
| no tails (full seq.) | .9443 | .7522 | .5401 | .9472 | .7559 | .5324 |
| max length (full seq.) | .9471 | .7497 | .4407 | .9536 | .7584 | .5468 |
| Swiss-Prot | ||||||
| full sequence | .9245 | .6908 | - | .9464 | .7474 | - |
| region | .9752 | .8556 | 2.46e-04 | .9732 | .8605 | 1.5e-03 |
| no tails (full seq.) | .9361 | .6938 | .8621 | .9395 | .7160 | .6259 |
| max length (full seq.) | .9300 | .6514 | .2589 | .9348 | .6817 | .1369 |
| NR | ||||||
| full sequence | .9419 | .7328 | - | .9556 | .7566 | - |
| region | .9824 | .8861 | 1.08e-05 | .9861 | .8944 | 2.2e-05 |
| no tails (full seq.) | .9575 | .7438 | .6640 | .9602 | .7486 | .8507 |
| max length (full seq.) | .9513 | .7401 | .8656 | .9528 | .7595 | .8696 |
* p-value: signed-rank test on ROC50 scores against full sequence in the corresponding setting