Skip to main content

Table 4 Prediction performance of single propensities by LOOCV using Random Forest (column 2–5) and SVM (column 6–9)

From: Staged heterogeneity learning to identify conformational B-cell epitopes from antigen sequences

Rank Propensity Recall Precision F-score Propensity Recall Precision F-score
Best1 P209 0.618 0.188 0.289 P206 0.720 0.177 0.284
Best2 P206 0.646 0.174 0.274 P209 0.630 0.179 0.279
Best3 P170 0.560 0.173 0.265 P208 0.724 0.167 0.271
Worst3 P122 0.362 0.165 0.227 P84 0.061 0.215 0.095
Worst2 P46 0.341 0.170 0.227 P166 0.090 0.100 0.095
Worst1 P44 0.283 0.169 0.212 P142 0.084 0.090 0.087
Average   0.537 0.165 0.252   0.407 0.163 0.219
  1. The propensity 208 (secondary structure) ranks fourth in RF, and has a recall of 0.670, precision of 0.164, and F-score of 0.264. Propensity 207 (conservation score) ranks 201 and 100 in RF and SVM, and has an F-score of 0.239 and 0.235 respectively. Explanations to other important propensities: 209-PSSM, 206-ASA, 170-Optimized beta-structure-coil equilibrium constant (AAIndex ID: OOBM850101). AAIndex ID for worst propensities: 122-CHAM830107, 46-FAUJ880111, 44-FAUJ880112, 84-AURR980110, 166-OOBM770104, 142-GEOR030104. Antigens without a certain propensity were ignored in this table