Table 5 

Residuewise Contact Order Estimation Performance 

w 
f = 1 
f = 3 
f = 5 
f = 7 
f = 9 
f = 11 



CC 
RMSE 
CC 
RMSE 
CC 
RMSE 
CC 
RMSE 
CC 
RMSE 
CC 
RMSE 



3 
0.704 
0.696 
0.708 
0.692 
 
 
 
 
 
 
 
 

7 
0.712 
0.683 
0.719 
0.677 
0.723 
0.672 
0.722 
0.672 
 
 
 
 

11 
0.711 
0.681 
0.720 
0.673 
0.725 
0.667 
0.725 
0.666 
0.724 
0.666 
0.722 
0.667 

15 
0.709 
0.680 
0.719 
0.672 
0.726** 
0.665 
0.726 
0.664 
0.725 
0.664 
0.723 
0.664 



CC and RMSE denotes the average correlation coefficient and RMSE values. The numbers in bold show the best models as measured by CC for a fixed w parameter. , and represent the PSIBLAST profile and YASSPP scoring matrices, respectively. soe, rbf, and lin represent the three different kernels studied using the as the base kernel. * denotes the best regression results in the subtables, and ** denotes the best regression results achieved on this dataset. For the best results the se rate for the CC values is 0.003. The published results [15] uses the default rbf kernel to give CC = 0.600 and RMSE = 0.78. 

Rangwala et al. BMC Bioinformatics 2009 10:439 doi:10.1186/1471210510439 