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Table 1 Average performance of grammars for individual ASMs

From: Searching for universal model of amyloid signaling motifs using probabilistic context-free grammars

motif

trn

val: PDBfrag

tst: PDBfull

tst: NLReff

tst: DisProt

Family

Size

AP

YI

Recall@

Recall@

Recall@

AP

    

FPR0.01

FPR0.01

FPR0.001

 

BASS1

210

0.93/0.95

0.98/0.98

0.99

0.99

0.97

1.00

BASS2

329

0.92/0.94

0.96/0.97

0.98

0.99

0.97

1.00

BASS3

145

0.92/0.93

0.98/0.97

0.97

0.98

0.92

0.99

BASS4

127

0.77/0.93

0.96/0.97

1.00

1.00

0.96

1.00

BASS5

50

0.83/0.86

0.99/0.99

0.85

0.90

0.81

0.97

BASS6

111

0.89/0.89

0.97/0.98

0.91

0.97

0.89

0.97

BASS7

17

0.85/–

0.95/–

0.97

0.92

0.97

0.98

BASS8

14

0.79/–

0.93/–

1.00

1.00

0.96

1.00

BASS9

38

0.42/0.63

0.87/0.91

0.79

0.90

0.79

0.96

BASS10

7

0.57/–

0.99/–

1.00

1.00

1.00

1.00

  1. AP and YI are given for both training without contacts/with contacts. The test set performance is shown only for the mode with the best validation AP. Notations: trn, val, tst are training, validation and testing positive sets, AP is the average precision and YI is Youden’s Index