Journal
JOURNAL OF COMPUTATIONAL CHEMISTRY
Volume 32, Issue 1, Pages 170-173Publisher
WILEY
DOI: 10.1002/jcc.21596
Keywords
RNA; DNA; complexes; concentrations; sequence design
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Funding
- National Science Foundation [CCF-0832824, CHE-0533064, DMS-0506468]
- The National Institutes of Health [P50 HG004071]
- The Ralph M. Parsons Foundation
- Beckman Institute at Caltech
- Direct For Computer & Info Scie & Enginr
- Division of Computing and Communication Foundations [832824] Funding Source: National Science Foundation
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The Nucleic Acid Package (NUPACK) is a growing software suite for the analysis and design of nucleic acid systems. The NUPACK web server (http://www.nupack.org) currently enables: Analysis: thermodynamic analysis of dilute solutions of interacting nucleic acid strands. Design: 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. (C) 2010 Wiley Periodicals, Inc. J Comput Chem 32: 170-173, 2011
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