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Curr Protoc Nucleic Acid Chem. 2016 Dec 1;67:11.2.1-11.2.19. doi: 10.1002/cpnc.19.

RNA Secondary Structure Prediction.

Author information

1
University of Rochester, Rochester, New York.

Abstract

In this unit, protocols are provided for predicting RNA secondary structure with the user-friendly RNAstructure desktop computer program and the RNAstructure Web server. The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted. Prediction of high-affinity oligonucleotide binding sites to a structured RNA target is also presented.

KEYWORDS:

RNA folding; RNA secondary structure prediction; binding affinity; free energy minimization; partition function; thermodynamics

PMID:
27911493
DOI:
10.1002/cpnc.19
[Indexed for MEDLINE]

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