From: PaPI: pseudo amino acid composition to score human protein-coding variants
Test Set | Tool | AUC | Accuracy [IC95%] | Sens | Spec | PPV | NPV | F-m | MCC |
---|---|---|---|---|---|---|---|---|---|
# 1 | PaPI | .9207 | .8621 [.8553-.8685] | .8580 | .8663 | .8688 | .8553 | .8633 | .7242 |
RF | .8941 | .8262 [.8189-.8334] | .8286 | .8238 | .8291 | .8233 | .8289 | .6524 | |
PolyPhen2 | .9137 | .8425 [.8354-.8493] | .8533 | .8314 | .8392 | .846 | .8462 | .6849 | |
SIFT | .8682 | .8045 [.7968-.812] | .7724 | .8376 | .8307 | .781 | .8005 | .6108 | |
# 2 | PaPI | .9196 | .8618 [.8550-.8683] | .8572 | .8665 | .869 | .8545 | .8631 | .7236 |
RF | .8960 | .8275 [.8202-.8346] | .8319 | .823 | .8292 | .8257 | .8305 | .6549 | |
PolyPhen2 | .9121 | .8401 [.8330-.847] | .8486 | .8314 | .8387 | .8417 | .8436 | .6801 | |
SIFT | .8677 | .7994 [.7917-.807] | .7625 | .8376 | .829 | .7735 | .7944 | .6013 | |
# 3 | PaPI | .9239 | .8648 [.8568-.8724] | .8570 | .8729 | .8745 | .8553 | .8657 | .7298 |
RF | .8999 | .8289 [.8202-.8373] | .8358 | .8218 | .8289 | .8289 | .8323 | .6577 | |
PolyPhen2 | .9185 | .8416 [.8331-.8497] | .8501 | .8328 | .8401 | .8432 | .8451 | .6831 | |
SIFT | .8688 | .7999 [.7906-.8088] | .7558 | .8454 | .8348 | .7701 | .7933 | .603 |