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. Author manuscript; available in PMC: 2019 Oct 1.
Published in final edited form as: J Comput Aided Mol Des. 2018 Aug 6;32(10):1059–1073. doi: 10.1007/s10822-018-0144-8

Table 2.

Comparison of computed and experimental free energy.

Method RMSE MAE s r R2 τ ρ
DDM* 4.32 3.82 1.92 0.70a 0.49 0.52b 0.75c
DDM** 4.45 3.89 1.77 0.67d 0.45 0.48e 0.73f
US** 5.94 4.99 0.82 0.41g 0.17 0.15h 0.24i
*

Results including all guest molecules (G0-G13).

**

Results of guest molecules G0-G11.

RMSE and MAE are the root mean square error and mean absolute error between computed and experimental values, respectively.

s denotes the slope of the linear regression line.

r, τ, ρ is Pearson, Kendall, and Spearman correlation coefficient, respectively.

R2 is correlation coefficient of determination.

a

p-value of 0.0042 with a confidential interval of [0.27, 0.90] (two-tailed test; n=14, α=0.05 with Fisher z-transformation)

b

p-value of 0.010 with a confidential interval of [0.12, 0.91] (two-tailed test; n=14, α=0.05)

c

p-value of 0.0020 (two-tailed test; n=14, α=0.05)

d

p-value of 0.015 with a confidential interval of [0.15, 0.90] (two-tailed test; n=12, α=0.05 with Fisher z-transformation)

e

p-value of 0.028 with a confidential interval of [0.05, 0.92] (two-tailed test; n=12, α=0.05)

f

p-value of 0.0074 (two-tailed test; n=12, α=0.05)

g

p-value of 0.19 with a confidential interval of [−0.21, 0.80] (two-tailed test; n=12, α=0.05 with Fisher z-transformation)

h

p-value of 0.49 with a confidential interval of [−0.28, 0.58] (two-tailed test; n=12, α=0.05)

i

p-value of 0.46 (two-tailed test; n=12, α=0.05)

Note that the computed first binding free energy value of G11 (−7.70 ± 0.21 kcal/mol) was used for the analysis.

In case of G12, the computed value was compared with the first binding free energy of experiment (−9.86 ± 0.03 kcal/mol).

For G13, the average of the first and second binding free energy (−4.45 ± 0.19 kcal/mol) was compared to the experimental value (7.11 ± 0.03 kcal/mol).