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Table 2 Performances of all 9 regression-based Abs_CO prediction methods

From: Protein contact order prediction from primary sequences

  Correlation Coefficient Average Percent Correct Standard Deviation
Method LR SVR NN LR SVR NN LR SVR NN
Method 1 (F3) 0.8571 0.8583 0.8513 0.8630 0.8659 0.8543 0.1099 0.1060 0.1445
Method 1 (F7) 0.8603 0.8543 0.8737 0.8636 0.8681 0.8656 0.1091 0.1094 0.1110
Method 1 (F27) 0.8702 0.8658 0.7713 0.8659 0.8717 0.8086 0.1060 0.1291 1.2222
Method 2 (F3) 0.8477 0.8440 0.8680 0.8577 0.8664 0.8612 0.1179 0.1129 0.1073
Method 2 (F7) 0.8499 0.8455 0.8667 0.8570 0.8669 0.8656 0.1161 0.1142 0.1110
Method 2 (F27) 0.8662 0.8550 0.8233 0.8620 0.8714 0.7016 0.1105 0.1167 3.3827
Method 3 (F3) 0.8375 0.8378 0.8439 0.8542 0.8647 0.8560 0.1200 0.1168 0.1103
Method 3 (F7) 0.8421 0.8381 0.8636 0.8537 0.8637 0.8648 0.1192 0.1165 0.1156
Method 3 (F27) 0.8625 0.8512 0.7706 0.8605 0.8695 0.8106 0.1126 0.1194 0.3662
  1. The correlation coefficients, the average percent correct values, and the standard deviations of the percent correct values for all 9 regression-based Abs_CO prediction methods. The first set of results (rows 3–5) are for Method 1 in which the percentage of residues in alpha helices, p(α), and beta strands, p(β), are used as two factors. In particular, the F3-LR regression formula is Abs_CO = -6.8968p(α) + 7.6216p(β) + 0.0612L + 8.0397. The second set of results (rows 6–8) are for Method 2 in which the numbers of residues in alpha helices, q(α), and beta strands, q(β), are used as two factors. In particular, the F3-LR regression formula is Abs_CO = -0.0591q(α) + 0.0789L + 8.3774. The third set of results (rows 9–11) are for Method 3 in which the numbers of alpha helices, n(α), and beta strands, n(β), are used as two factors. In particular, the F3-LR regression formula is Abs_CO = -0.4184n(α) + 0.1992n(β) + 0.0611L + 8.647.