RNA Folding Algorithms with G-Quadruplexes

RNA Folding Algorithms with G-Quadruplexes

Abstract

G-quadruplexes are abundant locally stable structural elements in nucleic acids. The combinatorial theory of RNA structures and the dynamic programming algorithms for RNA secondary structure prediction are extended here to incorporate G-quadruplexes using a simple but plausible energy model. With preliminary energy parameters we find that the overwhelming majority of putative quadruplex-forming sequences in the human genome are likely to fold into canonical secondary structures instead.

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Authors
  • Lorenz, Ronny
  • Bernhart, Stephan H.
  • Externbrink, Fabian
  • Qin, Jing
  • Höner zu Siederdissen, Christian
  • Amman, Fabian
  • Hofacker, Ivo L.
  • Stadler, Peter F.
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Editors
  • de Souto, M.C.P.
  • Kann, M.G.
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Shortfacts
Category
Book Section/Chapter
Divisions
Bioinformatics and Computational Biology
Subjects
Angewandte Informatik
Title of Book
Advances in Bioinformatics and Computational Biology
Page Range
pp. 49-60
Date
2012
Official URL
http://dx.doi.org/10.1007/978-3-642-31927-3_5
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