article Open AccessTop 1% cited
NUPACK: Analysis and design of nucleic acid systems
Journal of Computational Chemistry · 2010 · Vol. 32(1) · pp. 170–173
Joseph N. Zadeh(California Institute of Technology)Conrad Steenberg(California Institute of Technology)Justin S. Bois(California Institute of Technology)Brian R. Wolfe(California Institute of Technology)Marshall B. Pierce(California Institute of Technology)Asif R. Khan(California Institute of Technology)Robert M. Dirks(California Institute of Technology)Niles A. Pierce✉(California Institute of Technology)
Abstract
sequence design for complexes of nucleic acid strands intended to adopt a target secondary structure at equilibrium.Utilities: evaluation, display, and annotation of equilibrium properties of a complex of nucleic acid strands. NUPACK algorithms are formulated in terms of nucleic acid secondary structure. In most cases, pseudoknots are excluded from the structural ensemble.
Advanced biosensing and bioanalysis techniquesDNA and Nucleic Acid ChemistryRNA and protein synthesis mechanismsNucleic acidNucleic acid structureComputer scienceChemistryRNABiochemistry
MeSH terms
DNAModels, MolecularNucleic Acid ConformationNucleic AcidsRNASoftware
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1,749
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10
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References
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
Journal of Molecular Biology · 1999 · 3,833 citations
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