M
Michael Zuker
Researcher at Rensselaer Polytechnic Institute
Publications - 74
Citations - 33564
Michael Zuker is an academic researcher from Rensselaer Polytechnic Institute. The author has contributed to research in topics: RNA & Nucleic acid secondary structure. The author has an hindex of 42, co-authored 74 publications receiving 31993 citations. Previous affiliations of Michael Zuker include National Research Council & Washington University in St. Louis.
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Mfold web server for nucleic acid folding and hybridization prediction
TL;DR: The objective of this web server is to provide easy access to RNA and DNA folding and hybridization software to the scientific community at large by making use of universally available web GUIs (Graphical User Interfaces).
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Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.
TL;DR: An improved dynamic programming algorithm is reported for RNA secondary structure prediction by free energy minimization and experimental constraints, derived from enzymatic and flavin mononucleotide cleavage, improve the accuracy of structure predictions.
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Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
Michael Zuker,Patrick Stiegler +1 more
TL;DR: In this article, a dynamic programming algorithm was proposed to fold an RNA molecule that finds a conformation of minimum free energy using published values of stacking and destabilizing energies, based on applied mathematics.
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On finding all suboptimal foldings of an RNA molecule
TL;DR: The mathematical problem of determining how well defined a minimum energy folding is can now be solved and all predicted base pairs that can participate in suboptimal structures may be displayed and analyzed graphically.
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Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure
David H. Mathews,Matthew D. Disney,Jessica L. Childs,Susan J. Schroeder,Michael Zuker,Douglas H. Turner +5 more
TL;DR: A dynamic programming algorithm for prediction of RNA secondary structure has been revised to accommodate folding constraints determined by chemical modification and to include free energy increments for coaxial stacking of helices when they are either adjacent or separated by a single mismatch.