Struct-NB: Predicting protein-RNA binding sites using structural features

Fadi Towfic, Cornelia Caragea, David C. Gemperline, Drena Dobbs, Vasant Honavar

Research output: Contribution to journalArticle

34 Scopus citations

Abstract

We analyse sequence and structural features of protein-RNA interfaces using RB-147, a non-redundant dataset of protein-RNA complexes extracted from the PDB. We train classifiers using machine learning algorithms to predict protein-RNA interfaces from sequence and structure-derived features of proteins. Our experiments show that Struct-NB, a Naïve Bayes classifier that exploits structural features, outperforms its counterparts that use only sequence features to predict protein-RNA binding residues.

Original languageEnglish (US)
Pages (from-to)21-43
Number of pages23
JournalInternational Journal of Data Mining and Bioinformatics
Volume4
Issue number1
DOIs
StatePublished - Jan 2010

All Science Journal Classification (ASJC) codes

  • Information Systems
  • Biochemistry, Genetics and Molecular Biology(all)
  • Library and Information Sciences

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