Features extraction using free score of words for classifying conotoxin superfamily

Nazar Zaki, Piers Campbell, Stefan Wolfsheimer, Gregory Nuel

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Interest in Conotoxin has been rapidly growing over the past number of years due to its potential for effective use in the design of drugs to treat a myriad of conditions including, neuromuscular disorders, chronic pain and schizophrenia. As a result it is necessary to develop powerful and efficient techniques which can accurately classify conotoxin super families. In this paper, we propose a novel technique which makes use of support vector machines for classification. The method which considers suboptimal alignments of words with restricted length and computes local alignment partition functions to produce free scores for the alignments plays the key role in the feature extraction step of support vector machine classification. In the classification of conotoxin proteins, the proposed approach, SVM-Freescore, demonstrates its potential use by yielding an improved sensitivity and specificity of approximately 5.864% and 3.76%, respectively.

Original languageEnglish
Title of host publicationProceedings - 2011 12th ACIS International Conference on Software Engineering, Artificial Intelligence Networking and Parallel Distributed Computing, SNPD 2011
Pages79-84
Number of pages6
DOIs
Publication statusPublished - Nov 21 2011
Event2011 12th ACIS International Conference on Software Engineering, Artificial Intelligence Networking and Parallel Distributed Computing, SNPD 2011 - Sydney, NSW, Australia
Duration: Jul 6 2011Jul 8 2011

Publication series

NameProceedings - 2011 12th ACIS International Conference on Software Engineering, Artificial Intelligence Networking and Parallel Distributed Computing, SNPD 2011

Other

Other2011 12th ACIS International Conference on Software Engineering, Artificial Intelligence Networking and Parallel Distributed Computing, SNPD 2011
Country/TerritoryAustralia
CitySydney, NSW
Period7/6/117/8/11

Keywords

  • Conotoxin
  • free-scores
  • local alignment
  • suboptimal alignments
  • support vector machines

ASJC Scopus subject areas

  • Artificial Intelligence
  • Software

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