From: PaPI: pseudo amino acid composition to score human protein-coding variants
Data Set | Tool | AUC | Balanced Accuracy | Sens | Spec | PPV | NPV | F-m | MCC |
---|---|---|---|---|---|---|---|---|---|
# 1 | PaPI | .9218 | .8575 | .8518 | .8631 | .8989 | .803 | .8747 | .7084 |
Carol | .9120 | .8492 | .821 | .8774 | .9054 | .7742 | .8611 | .689 | |
Provean | .8938 | .8264 | .7894 | .8634 | .892 | .7415 | .8375 | .643 | |
SIFT | .883 | .8142 | .7633 | .8651 | .8899 | .7189 | .8218 | .6185 | |
PolyPhen2 | .9144 | .8425 | .8503 | .8348 | .8803 | .796 | .865 | .6806 | |
FATHMM | .8301 | .7517 | .6267 | .8766 | .8789 | .6217 | .7317 | .502 | |
LRT | .8455 | .8249 | .8009 | .8488 | .8833 | .749 | .8401 | .6409 | |
MutAssessor | .8899 | .812 | .7578 | .8662 | .89 | .7144 | .8186 | .6141 | |
# 2 | PaPI | .9246 | .863 | .8623 | .8637 | .8989 | .8169 | .8802 | .7209 |
Carol | .9121 | .8442 | .811 | .8774 | .9029 | .7675 | .8545 | .6794 | |
Provean | .8984 | .8354 | .8074 | .8634 | .8926 | .7613 | .8479 | .6623 | |
SIFT | .8836 | .8091 | .7532 | .8651 | .887 | .7137 | .8146 | .6094 | |
PolyPhen2 | .9183 | .8491 | .8635 | .8348 | .8802 | .813 | .8717 | .6957 | |
FATHMM | .8355 | .7603 | .6441 | .8766 | .8801 | .6366 | .7438 | .5187 | |
LRT | .8506 | .8317 | .8147 | .8488 | .8834 | .7651 | .8477 | .656 | |
MutAssessor | .8923 | .8134 | .7606 | .8662 | .8888 | .7202 | .8197 | .6178 | |
# 3 | PaPI | .9332 | .8721 | .8751 | .8692 | .9046 | .8308 | .8896 | .7398 |
Carol | .9239 | .8551 | .8187 | .8915 | .9145 | .7763 | .8639 | .7004 | |
Provean | .9159 | .8444 | .8156 | .8731 | .9011 | .7697 | .8562 | .6797 | |
SIFT | .8911 | .8166 | .759 | .8743 | .8953 | .7191 | .8215 | .6238 | |
PolyPhen2 | .9303 | .8542 | .8729 | .8355 | .8826 | .8226 | .8777 | .7068 | |
FATHMM | .8436 | .7643 | .6410 | .8876 | .8899 | .6356 | .7452 | .527 | |
LRT | .8682 | .8408 | .8289 | .8527 | .8886 | .7786 | .8577 | .6744 | |
MutAssessor | .8988 | .8273 | .7772 | .8774 | .8998 | .7354 | .8341 | .6449 |