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. 2018 Oct 24;14(10):e1006471. doi: 10.1371/journal.pcbi.1006471

Table 1. Prediction accuracy of the quantum chemistry and group contribution method modeling approaches.


G1 (n = 8)
Carboxylic Acid to Carbonyl
G2 (n = 59)
Carbonyl to Hydroxycarbon
G3 (n = 23)
Carbonyl to Amine
G4 (n = 15)
Hydroxycarbon to Hydrocarbon
Quantum Chemistry MAE = 45 mV
Pearson r = 0.43
R2 = 0.19
No. params. = 2
MAE = 31 mV
Pearson r = 0.59
R2 = 0.35
No. params. = 2
MAE = 17 mV
Pearson r = 0.70
R2 = 0.49
No. params. = 2
MAE = 34 mV
Pearson r = 0.45
R2 = 0.21
No. params. = 2
Group Contribution Method MAE = 52 mV
Pearson r = 0.54
R2 = 0.17
No. params. = 6
MAE = 34 mV
Pearson r = 0.48
R2 = 0.21
No. params. = 13
MAE = 31 mV
Pearson r = 0.22
R2 = -0.23
No. params. = 5
MAE = 66 mV
Pearson r = 0.16
R2 = -3.39
No. params. = 6

The number of available experimental values for each reaction category is indicated in parentheses. MAE = Mean Absolute Error; R2 = coefficient of determination. Note that for the G1 category, quantum chemistry has a lower MAE, but GCM has higher values of Pearson r. While the Pearson r can range from -1 to 1, R2 can take on any negative value. A prediction method with the same accuracy as the mean predictor (a constant model that always predicts the mean value of the experimental data) has a value of R2 = 0; negative values of R2 indicate prediction accuracies that are worse than the mean predictor. GCM estimates of standard redox potentials were obtained from the implementation by Noor et al. [36,37] used by eQuilibrator (see Methods).