Rtips: Fast and accurate tools for RNA 2D structure prediction using integer programming

Yuki Kato, Kengo Sato, Kiyoshi Asai, Tatsuya Akutsu

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

We present a web-based tool set Rtips for fast and accurate prediction of RNA 2D complex structures. Rtips comprises two computational tools based on integer programming, IPknot for predicting RNA secondary structures with pseudoknots and RactIP for predicting RNA-RNA interactions with kissing hairpins. Both servers can run much faster than existing services with the same purpose on large data sets as well as being at least comparable in prediction accuracy. The Rtips web server along with the stand-alone programs is freely accessible at http://rna.naist.jp/.

Original languageEnglish
Pages (from-to)W29-W34
JournalNucleic acids research
Volume40
Issue numberW1
DOIs
Publication statusPublished - 2012 Jul

ASJC Scopus subject areas

  • Genetics

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