Follow
David H. Mathews
David H. Mathews
Department of Biochemistry and Biophysics, University of Rochester Medical Center
Verified email at urmc.rochester.edu - Homepage
Title
Cited by
Cited by
Year
Amber 10
DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ...
University of California, 2008
12144*2008
Amber 2021
DA Case, HM Aktulga, K Belfon, I Ben-Shalom, SR Brozell, DS Cerutti, ...
University of California, San Francisco, 2021
52982021
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
DH Mathews, J Sabina, M Zuker, DH Turner
Journal of molecular biology 288 (5), 911-940, 1999
48231999
RNAstructure: software for RNA secondary structure prediction and analysis
JS Reuter, DH Mathews
BMC bioinformatics 11, 1-9, 2010
19442010
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure
DH Mathews, MD Disney, JL Childs, SJ Schroeder, M Zuker, DH Turner
Proceedings of the National Academy of Sciences 101 (19), 7287-7292, 2004
18532004
Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide
M Zuker, DH Mathews, DH Turner
RNA biochemistry and biotechnology, 11-43, 1999
14571999
Accurate SHAPE-directed RNA structure determination
KE Deigan, TW Li, DH Mathews, KM Weeks
Proceedings of the National Academy of Sciences 106 (1), 97-102, 2009
7722009
Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding.
AE Walter, DH Turner, J Kim, MH Lyttle, P Müller, DH Mathews, M Zuker
Proceedings of the National Academy of Sciences 91 (20), 9218-9222, 1994
6371994
NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure
DH Turner, DH Mathews
Nucleic acids research 38 (suppl_1), D280-D282, 2010
6282010
AMBER 10; University of California: San Francisco, 2008
DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ...
Google Scholar There is no corresponding record for this reference, 2008
5282008
Dynalign: an algorithm for finding the secondary structure common to two RNA sequences
DH Mathews, DH Turner
Journal of molecular biology 317 (2), 191-203, 2002
5242002
Prediction of RNA secondary structure by free energy minimization
DH Mathews, DH Turner
Current opinion in structural biology 16 (3), 270-278, 2006
5212006
High-throughput SHAPE analysis reveals structures in HIV-1 genomic RNA strongly conserved across distinct biological states
KA Wilkinson, RJ Gorelick, SM Vasa, N Guex, A Rein, DH Mathews, ...
PLoS biology 6 (4), e96, 2008
4712008
Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization
DH Mathews
Rna 10 (8), 1178-1190, 2004
4502004
RNAstructure: web servers for RNA secondary structure prediction and analysis
S Bellaousov, JS Reuter, MG Seetin, DH Mathews
Nucleic acids research 41 (W1), W471-W474, 2013
4132013
FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing
JG Underwood, AV Uzilov, S Katzman, CS Onodera, JE Mainzer, ...
Nature methods 7 (12), 995-1001, 2010
3862010
Accurate SHAPE-directed RNA secondary structure modeling, including pseudoknots
CE Hajdin, S Bellaousov, W Huggins, CW Leonard, DH Mathews, ...
Proceedings of the National Academy of Sciences 110 (14), 5498-5503, 2013
3462013
Predicting oligonucleotide affinity to nucleic acid targets
DH Mathews, ME Burkard, SM Freier, JR Wyatt, DH Turner
Rna 5 (11), 1458-1469, 1999
3111999
Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change
AV Uzilov, JM Keegan, DH Mathews
BMC bioinformatics 7, 1-30, 2006
2732006
Revolutions in RNA secondary structure prediction
DH Mathews
Journal of molecular biology 359 (3), 526-532, 2006
2672006
The system can't perform the operation now. Try again later.
Articles 1–20