David H. Mathews

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dh turnerProfessor of Chemistry, University of RochesterAdresse e-mail validée de rochester.edu
Michael ZukerRensselaer Polytechnic InstituteAdresse e-mail validée de alum.mit.edu
Stanislav BellaousovUniversity of RochesterAdresse e-mail validée de urmc.rochester.edu
Liang HuangProfessor of Computer Science and (by courtesy) Biochemistry/Biophysics, Oregon State UniversityAdresse e-mail validée de oregonstate.edu
Kevin M WeeksKenan Distinguished Professor, University of North Carolina - Chapel HillAdresse e-mail validée de unc.edu
He ZhangRaina Biosciences, Baidu Research USA (previously), Oregon State University (previously)Adresse e-mail validée de rainabio.com
Gaurav SharmaUniversity of RochesterAdresse e-mail validée de rochester.edu
Joseph WedekindUniversity of Rochester School of Medicine and DentistryAdresse e-mail validée de rochester.edu
Zhi John LuAssociate Professor, Tsinghua UniversityAdresse e-mail validée de tsinghua.edu.cn
Liang ZhangZhejiang Cancer Hospital, Hangzhou Institute of Medicine (HIM), Chinese Academy of SciencesAdresse e-mail validée de him.cas.cn
Zhenjiang Zech Xustate key lab of food science and resources, nuAdresse e-mail validée de ucsd.edu
Arif Ozgun HarmanciUniversity of Texas Health Science Center at HoustonAdresse e-mail validée de harmancilab.org
Chapin E. CavenderOpen Force Field Initiative, University of California San Diego, Skaggs School of PharmacyAdresse e-mail validée de health.ucsd.edu
Zhen TanYale UniversityAdresse e-mail validée de yale.edu
Aleksandar SpasicWuXi AppTec, Natick, MAAdresse e-mail validée de wuxiapptec.com
Xiaoju ZhangMETiS TherapeuticsAdresse e-mail validée de metispharma.com
Philip BevilacquaProfessor of Chemistry, The Pennsylvania State UniversityAdresse e-mail validée de psu.edu
Alan GrossfieldBiochemistry and Biophysics, University of Rochester Medical CenterAdresse e-mail validée de urmc.rochester.edu
Hongying SunUniversity of RochesterAdresse e-mail validée de rochester.edu
Sizhen LiOregon State UniversityAdresse e-mail validée de oregonstate.edu

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David H. Mathews

Department of Biochemistry and Biophysics, University of Rochester Medical Center

Adresse e-mail validée de urmc.rochester.edu - Page d'accueil

Computational Biology RNA RNA Biology


Titre Trier par citations Trier par année Trier par titre	Citée par Citée par	Année
Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008	12195*	2008
Amber 2021 DA Case, HM Aktulga, K Belfon, I Ben-Shalom, SR Brozell, DS Cerutti, ... University of California, San Francisco, 2021	5805	2021
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	4878	1999
RNAstructure: software for RNA secondary structure prediction and analysis JS Reuter, DH Mathews BMC bioinformatics 11, 1-9, 2010	2064	2010
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	1899	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	1458	1999
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	795	2009
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	657	2010
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	640	1994
Prediction of RNA secondary structure by free energy minimization DH Mathews, DH Turner Current opinion in structural biology 16 (3), 270-278, 2006	532	2006
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	530	2002
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	508	2008
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	479	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	463	2004
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	444	2013
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	392	2010
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	360	2013
Predicting oligonucleotide affinity to nucleic acid targets DH Mathews, ME Burkard, SM Freier, JR Wyatt, DH Turner Rna 5 (11), 1458-1469, 1999	314	1999
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	283	2006
Revolutions in RNA secondary structure prediction DH Mathews Journal of molecular biology 359 (3), 526-532, 2006	274	2006

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