Dlakic, Mensur2019-04-162019-04-162009-12Dlakić, Mensur. “HHsvm: Fast and Accurate Classification of Profile–profile Matches Identified by HHsearch.” Bioinformatics 25, no. 23 (September 22, 2009): 3071–3076. doi:10.1093/bioinformatics/btp555.1367-4803https://scholarworks.montana.edu/handle/1/15426Motivation: Recently developed profile–profile methods rival structural comparisons in their ability to detect homology between distantly related proteins. Despite this tremendous progress, many genuine relationships between protein families cannot be recognized as comparisons of their profiles result in scores that are statistically insignificant. Results: Using known evolutionary relationships among protein superfamilies in SCOP database, support vector machines were trained on four sets of discriminatory features derived from the output of HHsearch. Upon validation, it was shown that the automatic classification of all profile–profile matches was superior to fixed threshold-based annotation in terms of sensitivity and specificity. The effectiveness of this approach was demonstrated by annotating several domains of unknown function from the Pfam database.enThis Item is protected by copyright and/or related rights. You are free to use this Item in any way that is permitted by the copyright and related rights legislation that applies to your use. For other uses you need to obtain permission from the rights-holder(s).http://rightsstatements.org/vocab/InC/1.0/Article