Computational approaches for alternative and transient secondary structures of ribonucleic acids

Tsukasa Fukunaga, Michiaki Hamada

Research output: Contribution to journalArticle


Transient and alternative structures of ribonucleic acids (RNAs) play essential roles in various regulatory processes, such as translation regulation in living cells. Because experimental analyses for RNA structures are difficult and time-consuming, computational approaches based on RNA secondary structures are promising. In this article, we review computational methods for detecting and analyzing transient/alternative secondary structures of RNAs, including static approaches based on probabilistic distributions of RNA secondary structures and dynamic approaches such as kinetic folding and folding pathway predictions.

Original languageEnglish
Pages (from-to)182-191
Number of pages10
JournalBriefings in Functional Genomics
Issue number3
Publication statusPublished - 2018 Jan 1



  • Alternative/transient structures
  • Folding pathway
  • Kinetic folding
  • Probability distribution of secondary structures
  • Riboswitch
  • RNA secondary structures

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Genetics

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