Table 1.

Comparison Between the Performance of the Energy Functions Generated by Our Method (GP) and a Linear Combination of Energy Terms (Nelder-Mead Downhill Simplex Method)⁵

	Spearman-sigmoid		Correlation
Method	d-100	All	d-100	All
Simplex	0.734	0.638	0.65	0.166
GP	0.835	0.714	0.74	0.2

All, complete training set; correlation, Pearson's correlation coefficient between the scores given by the energy function and the similarity of a model to the real protein structure; d-100, subset of the training set that sampled uniformly the whole range of similarities to the real structure; Spearman-sigmoid, objective function in the GP method. Reproduced from Widera et al.'s (5) Table 6 with permission from Springer Science+Business Media.