performance accuracies, PANTHER [Thomas et al., 2003] appears to be the best performing theoretical/unweighted prediction method with an accuracy of 76%. It appears that both SIFT [Ng and Henikoff, 2001] (another sequence-based method) and our unweighted method perform less favorably with accuracies of 65% and 69%, respectively, indicating that FATHMM is somewhat the better option of the two. The observed performances in our analysis indicate that our weighted method is the best performing method available with an overall performance accuracy of 86%, thereby outperforming the current state-of-the-art prediction methods MutPred [Li et al., 2009; Mort et al., 2010] (81%) and SNPs&GO [Capriotti et al., 2006] (82%).
