2D meets 4G: G-quadruplexes in RNA secondary structure prediction

Jing Qin, Ronny Lorrenz et al

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

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. Stable G-quadruplexes are strongly enriched, however, in the 5ÊUTR of protein coding mRNAs.

OriginalsprogEngelsk
TidsskriftI E E E - A C M Transactions on Computational Biology and Bioinformatics
Vol/bind10
Udgave nummer4
Sider (fra-til)832-844
Antal sider12
ISSN1545-5963
DOI
StatusUdgivet - jul. 2013

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