title: RNA secondary structure prediction.
abstract: Details for predicting secondary structure of RNA sequences using free energy minimization are given. Protocols present the use of the RNAstructure computer program (for PCs) and the mfold server (for Unix platforms). 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.
authors.affiliation: University of Rochester, Rochester, New York, USA.
authors.forename: David H
authors.initials: DH
authors.lastname: Mathews
authors.forename: Douglas H
authors.initials: DH
authors.lastname: Turner
authors.forename: Michael
authors.initials: M
authors.lastname: Zuker
mesh_terms: D009690:Nucleic Acid Conformation; D011336:Probability; D012313:RNA / Q000737:chemistry*
chemical_list: D012313:RNA