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Table 1 Overall performance of ElliPro in comparison with other methods#.

From: ElliPro: a new structure-based tool for the prediction of antibody epitopes

 

ElliPro (radius 6Ã…)

PPI-PRED

PatchDock

ClusPro (DOT)

  
 

Best prediction (score 0.5)

Average (score 0.5)

1st prediction (score 0.7)

ProMate (patch)

1st patch

best patch

1st model

best model of top 10

1st model

best model of top 10

CEP (average)

DiscoTope (-7.7)

Overall statistics

sensitivity

0.601

0.165

0.093

0.091

0.153

0.331

0.300

0.425

0.258

0.453

0.310

0.416

1-specificity

0.138

0.109

0.047

0.083

0.161

0.135

0.135

0.114

0.079

0.067

0.223

0.214

precision

0.291

0.119

0.158

0.101

0.083

0.188

0.175

0.262

0.235

0.390

0.110

0.155

accuracy

0.840

0.832

0.879

0.841

0.780

0.819

0.816

0.846

0.863

0.892

0.739

0.754

AUC

0.732

0.528

0.523

0.504

0.496

0.598

0.583

0.656

0.589

0.693

0.544

0.601

P-value

0.00E+00

1.37E-04

9.52E-06

2.74E-01

1.0E+00

7.8E-30

9.0E-23

0.0E+00

7.9E-34

0.0E+00

4.3E-06

4.1E-25

Statistics averaged over epitopes

sensitivity

0.58 ± 0.25

0.17 ± 0.10

0.10 ± 0.20

0.09 ± 0.17

0.15 ± 0.24

0.34 ± 0.32

0.29 ± 0.26

0.42 ± 0.29

0.25 ± 0.31

0.46 ± 0.28

0.34 ± 0.28

0.43 ± 0.31

1-specificity

0.12 ± 0.10

0.11 ± 0.04

0.05 ± 0.03

0.08 ± 0.03

0.16 ± 0.07

0.14 ± 0.07

0.15 ± 0.06

0.13 ± 0.07

0.10 ± 0.07

0.08 ± 0.05

0.28 ± 0.20

0.22 ± 0.15

precision

0.44 ± 0.22

0.13 ± 0.06

0.16 ± 0.28

0.11 ± 0.20

0.10 ± 0.17

0.21 ± 0.24

0.19 ± 0.20

0.30 ± 0.25

0.25 ± 0.33

0.41 ± 0.29

0.11 ± 0.08

0.18 ± 0.12

accuracy

0.85 ± 0.08

0.82 ± 0.05

0.87 ± 0.05

0.83 ± 0.05

0.77 ± 0.07

0.81 ± 0.08

0.80 ± 0.08

0.83 ± 0.09

0.84 ± 0.09

0.88 ± 0.07

0.69 ± 0.17

0.74 ± 0.12

AUC

0.73 ± 0.11

0.53 ± 0.03

0.53 ± 0.10

0.51 ± 0.09

0.50 ± 0.13

0.60 ± 0.17

0.57 ± 0.14

0.64 ± 0.17

0.58 ± 0.17

0.69 ± 0.15

0.53 ± 0.08

0.60 ± 0.13

  1. # – best prediction, patch, or model corresponds to the most significant (minimal P-value) of the predicted epitopes