An iterative loop matching approach to the prediction of RNA secondary structures with pseudoknots

J. Ruan, G. D. Stormo, W. Zhang

Resultado de la investigación: Conference contribution

Resumen

In this paper we present a heuristic algorithm, iterative loop matching, for predicting RNA pseudoknots. The method can utilize either thermodynamic or comparative information or both, thus is able to predict for both aligned and individual sequences. Using 8-12 homologous sequences, the algorithm correctly identifies more than 90% of base-pairs for short sequences and 80% overall. It correctly predicts nearly all pseudoknots, while having very few false predictions. Comparisons show that our algorithm is more sensitive and more specific than existing methods. In addition, our algorithm is very efficient and can be applied to sequences up to several thousands of bases long.

Idioma originalEnglish (US)
Título de la publicación alojadaProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003
EditorialInstitute of Electrical and Electronics Engineers Inc.
Páginas519-520
Número de páginas2
ISBN (versión digital)0769520006, 9780769520001
DOI
EstadoPublished - 2003
Publicado de forma externa
Evento2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003 - Stanford, United States
Duración: ago 11 2003ago 14 2003

Serie de la publicación

NombreProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003

Conference

Conference2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003
País/TerritorioUnited States
CiudadStanford
Período8/11/038/14/03

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Computer Science Applications

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