Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information

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ID: 289816
1981
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Abstract
This paper presents a new computer method for folding an RNA molecule that finds a conformation of minimum free energy using published values of stacking and destabilizing energies. It is based on a dynamic programming algorithm from applied mathematics, and is much more efficient, faster, and can fold larger molecules than procedures which have appeared up to now in the biological literature. Its power is demonstrated in the folding of a 459 nucleotide immunoglobulin γ 1 heavy chain messenger RNA fragment. We go beyond the basic method to show how to incorporate additional information into the algorithm. This includes data on chemical reactivity and enzyme susceptibility. We illustrate this with the folding of two large fragments from the 16S ribosomal RNA of Escherichia coli.
Reference Key
openalex_W2025763720 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Michael Zuker, Patrick Stiegler
Journal Nucleic Acids Research
Year 1981
DOI
10.1093/nar/9.1.133
URL
https://doi.org/10.1093/nar/9.1.133
Keywords Keywords not found

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