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Review

From Structure Prediction to Genomic Screens for Novel Non-Coding RNAs

  • Jan Gorodkin mail,

    gorodkin@rth.dk (JG); ivo@tbi.univie.ac.at (ILH)

    Affiliations: Center for non-coding RNA in Technology and Health, IBHV University of Copenhagen, Frederiksberg, Denmark, Division of Genetics and Bioinformatics, IBHV University of Copenhagen, Frederiksberg, Denmark

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  • Ivo L. Hofacker mail

    gorodkin@rth.dk (JG); ivo@tbi.univie.ac.at (ILH)

    Affiliations: Center for non-coding RNA in Technology and Health, IBHV University of Copenhagen, Frederiksberg, Denmark, Department of Theoretical Chemistry, University of Vienna, Wien, Austria

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  • Published: August 04, 2011
  • DOI: 10.1371/journal.pcbi.1002100

Reader Comments (3)

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Missing citation

Posted by JPanek on 10 Aug 2011 at 12:24 GMT

However, the structure predicted might well be suboptimal for a number of reasons. These include inaccuracies of the energy model, kinetic folding effects, as well as neglecting tertiary structure.
http://ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002100#article1.body1.sec7.p4

Another reasons may exist, e.g. those already published in "The suboptimal structures find the optimal RNAs: homology search for bacterial non-coding RNAs using suboptimal RNA structures” by Pánek J, Krásny L, Bobek J, Jezková E, Korelusová J and Vohradsky J., Nucleic Acids Res. 2011 Apr;39(8):3418-26. Epub 2010 Dec 30.

No competing interests declared.