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Bioinformatics (Oxford, England)|February 21, 2006
Structural bioinformatics of DNA: a web-based tool for the analysis of molecular dynamics results and structure predictionSurjit B Dixit, David L BeveridgeJournal of Biosciences|July 4, 2012
Studies of base pair sequence effects on DNA solvation based on all-atom molecular dynamics simulationsSurjit B Dixit, Mihaly Mezei, David L BeveridgeBiopolymers|November 16, 2002
Molecular dynamics simulation studies of induced fit and conformational capture in U1A-RNA binding: do molecular substates code for specificity?Felicia Pitici, David L Beveridge, Anne M BarangerThe Journal of Physical Chemistry. B|May 11, 2017
Molecular Dynamics-Markov State Model of Protein Ligand Binding and Allostery in CRIB-PDZ: Conformational Selection and Induced FitKelly M Thayer, Bharat Lakhani, David L BeveridgeJournal of Biosciences|July 4, 2012
The ABCs of molecular dynamics simulations on B-DNA, circa 2012David L Beveridge, Thomas E Cheatham, Mihaly MezeiBiomolecules|July 27, 2022
High Energy Channeling and Malleable Transition States: Molecular Dynamics Simulations and Free Energy Landscapes for the Thermal Unfolding of Protein U1A and 13 MutantsNa Le Dang, Anne M Baranger, David L BeveridgeThe Journal of Physical Chemistry. B|January 10, 2023
Allosteric Signaling in PDZ Energetic Networks: Embedding Error AnalysisBenjamin S Cowan, David L Beveridge, Kelly M ThayerProceedings of the National Academy of Sciences of the United States of America|October 7, 2004
Ion motions in molecular dynamics simulations on DNASergei Y Ponomarev, Kelly M Thayer, David L BeveridgeJournal of the American Chemical Society|July 13, 2006
Do collective atomic fluctuations account for cooperative effects? Molecular dynamics studies of the U1A-RNA complexBethany L Kormos, Anne M Baranger, David L BeveridgeJournal of Chemical Information and Modeling|May 23, 2006
Root mean square deviation probability analysis of molecular dynamics trajectories on DNASurjit B Dixit, Sergei Y Ponomarev, David L BeveridgePageof 3