Molecular Biology

, Volume 37, Issue 5, pp 723–732 | Cite as

Search for Conserved Secondary Structures of RNA

  • K. Yu. Gorbunov
  • A. A. Mironov
  • V. A. Lyubetsky


We suggest a new algorithm to search a given set of the RNA sequences for conserved secondary structures. The algorithm is based on alignment of the sequences for potential helical strands. This procedure can be used to search for new structured RNAs and new regulatory elements. It is efficient for the genome-scale analysis. The results of various tests run with this algorithm are shown.

RNA secondary structure algorithm of dynamic programming tRNA structure RFN structure regulation of transcription regulation of translation 


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© MAIK “Nauka/Interperiodica” 2003

Authors and Affiliations

  • K. Yu. Gorbunov
    • 1
  • A. A. Mironov
    • 2
  • V. A. Lyubetsky
    • 1
  1. 1.Institute for Information Transmission ProblemsRussian Academy of SciencesMoscowRussia
  2. 2.State Research Center GosNIIGenetikaMoscowRussia

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