A new approach to RNA pseudoknot prediction

Junilda Spirollari, Jason Wang, Shawn Xiong Wang

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

Abstract

We present in this paper an ab initio method, named Knot-Fold, for RNA pseudoknot prediction. Our method employs a majority agreement algorithm to predict a set of pseudoknot-free stems using an ensemble of RNA folding tools, and then predicts pseudoknots by utilizing a search technique with a pseudo-probability scoring scheme. Experimental results on PseudoBase data show that Knot-Fold achieves higher sensitivity than related methods. The KnotFold package with documentation is available at http://bioinformatics.njit.edu/ KnotFold.

Original languageEnglish (US)
Title of host publication4th International Conference on Bioinformatics and Computational Biology 2012, BICoB 2012
Pages151-156
Number of pages6
StatePublished - Dec 1 2012
Event4th International Conference on Bioinformatics and Computational Biology 2012, BICoB 2012 - Las Vegas, NV, United States
Duration: Mar 12 2012Mar 14 2012

Publication series

Name4th International Conference on Bioinformatics and Computational Biology 2012, BICoB 2012

Other

Other4th International Conference on Bioinformatics and Computational Biology 2012, BICoB 2012
CountryUnited States
CityLas Vegas, NV
Period3/12/123/14/12

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering
  • Health Information Management

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