D
Douglas H. Turner
Researcher at University of Rochester
Publications - 256
Citations - 25022
Douglas H. Turner is an academic researcher from University of Rochester. The author has contributed to research in topics: RNA & Base pair. The author has an hindex of 71, co-authored 253 publications receiving 23804 citations. Previous affiliations of Douglas H. Turner include Wayne State University & University of Oklahoma.
Papers
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Journal ArticleDOI
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.
Journal ArticleDOI
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.
Journal ArticleDOI
Improved free-energy parameters for predictions of RNA duplex stability
Susan M. Freier,Ryszard Kierzek,John A. Jaeger,Naoki Sugimoto,Marvin H. Caruthers,Thomas Neilson,Douglas H. Turner +6 more
TL;DR: These parameters predict melting temperatures of most oligonucleotide duplexes within 5 degrees C, about as good as can be expected from the nearest-neighbor model.
Book ChapterDOI
Algorithms and Thermodynamics for RNA Secondary Structure Prediction: A Practical Guide
TL;DR: The details of the free energy rules and of the latest version 3.0 software are described and future plans are also discussed.
Journal ArticleDOI
Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson - Crick base pairs
Tianbing Xia,John SantaLucia,Mark E. Burkard,Ryszard Kierzek,Susan J. Schroeder,Xiaoqi Jiao,Christopher Cox,Douglas H. Turner +7 more
TL;DR: Improved thermodynamic parameters for prediction of RNA duplex formation are derived from optical melting studies of 90 oligoribonucleotide duplexes containing only Watson-Crick base pairs, and on average, the new parameters predict DeltaG degrees37, DeltaH degrees, DeltaS degrees, and TM within the limit of the model.