David H. Mathews

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Citations	29127	9738
h-index	53	39
i10-index	113	96

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Co-authors

Michael ZukerRensselaer Polytechnic InstituteVerified email at alum.mit.edu
Stanislav BellaousovUniversity of RochesterVerified email at urmc.rochester.edu
Gaurav SharmaUniversity of RochesterVerified email at rochester.edu
Zhi John LuPI, Tsinghua UniversityVerified email at biomed.tsinghua.edu.cn
Zhenjiang Zech XuState Key Laboratory of Food Science and Technology, Nanchang UniversityVerified email at ucsd.edu
Arif Ozgun HarmanciUniversity of Texas Health Sciences Center at HoustonVerified email at yale.edu
Aleksandar SpasicDepartment of Pharmacological Sciences, Icahn School of Medicine at Mount SinaiVerified email at mssm.edu
Asaminew H. AytenfisuDepartment of Pharmaceutical Sciences School of Pharmacy University of Maryland, BaltimoreVerified email at outerbanks.umaryland.edu
Philip BevilacquaProfessor of Chemistry, The Pennsylvania State UniversityVerified email at psu.edu
Xiaoju ZhangAbbott LaboratoriesVerified email at abbott.com
Joseph WedekindUniversity of Rochester School of Medicine and DentistryVerified email at rochester.edu
Matthew D. DisneyThe Scripps Research InstituteVerified email at scripps.edu
Zhen TanYale UniversityVerified email at yale.edu
Anne CondonProfessor of Computer Science, University of British ColumbiaVerified email at cs.ubc.ca
Alan GrossfieldBiochemistry and Biophysics, University of Rochester Medical CenterVerified email at urmc.rochester.edu
Holger HoosLeiden University, The Netherlands & University of British Columbia, CanadaVerified email at liacs.nl
Joshua DiamondAssistant Professor of Medicine, University of PennsylvaniaVerified email at uphs.upenn.edu
Todd LoweProfessor of Biomolecular Engineering, UC Santa Cruz Genomics Institute, UCSC RNA Center, UniversityVerified email at ucsc.edu
Eric PhizickyUniversity of RochesterVerified email at urmc.rochester.edu
Neocles B. LeontisBowling Green State universityVerified email at bgsu.edu

David H. Mathews

Department of Biochemistry and Biophysics, University of Rochester Medical Center

Verified email at urmc.rochester.edu - Homepage

Computational Biology RNA RNA Biology


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008	10056*	2008
Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008	9945*	2008
Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008	9945*	2008
Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008	9945*	2008
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	4418	1999
AMBER 9 DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ... University of California, San Francisco 45, 2006	3911	2006
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	1473	2004
Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide M Zuker, DH Mathews, DH Turner RNA biochemistry and biotechnology, 11-43, 1999	1352	1999
Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide M Zuker, DH Mathews, DH Turner RNA biochemistry and biotechnology, 11-43, 1999	1352	1999
Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide M Zuker, DH Mathews, DH Turner RNA biochemistry and biotechnology, 11-43, 1999	1352	1999
RNAstructure: software for RNA secondary structure prediction and analysis JS Reuter, DH Mathews BMC bioinformatics 11 (1), 1-9, 2010	1203	2010
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	592	2009
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	576	1994
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, 1996	500	1996
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	478	2002
Prediction of RNA secondary structure by free energy minimization DH Mathews, DH Turner Current opinion in structural biology 16 (3), 270-278, 2006	430	2006
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	410	2010
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 Biol 6 (4), e96, 2008	394	2008
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	353	2004
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	324	2010

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