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MultiSETTER - Multiple RNA Structure Similarity Algorithm

  • David Hoksza
  • Peter Szépe
  • Daniel Svozil
Part of the Lecture Notes in Computer Science book series (LNCS, volume 8213)

Abstract

Recent advances in RNA research and a steady growth of available RNA structures call for bioinformatics methods for handling RNA structural data. Recently, we have introduced SETTER — a fast and accurate method for RNA pairwise structural alignment. In the present contribution we describe its extension for multiple RNA structure alignment called MultiSETTER. It combines SETTER’s decomposition of RNA structures into disjoint fragments with a well known multiple sequence alignment algorithm ClustalW adapted for the structural alignment. We demonstrate the validity of our approach on the task of automatic classification of RNA structures.

Keywords

structural bioinformatics RNA tertiary structure structural similarity 

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Copyright information

© Springer International Publishing Switzerland 2013

Authors and Affiliations

  • David Hoksza
    • 1
  • Peter Szépe
    • 1
  • Daniel Svozil
    • 2
  1. 1.FMP, Department of Software EngineeringCharles University in PraguePragueCzech Republic
  2. 2.Laboratory of Informatics and ChemistryInstitute of Chemical TechnologyPragueCzech Republic

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