Published in Biopolymers on January 01, 2001
The Amber biomolecular simulation programs. J Comput Chem (2005) 28.84
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A replica exchange Monte Carlo algorithm for protein folding in the HP model. BMC Bioinformatics (2007) 1.11
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Recovering kinetics from a simplified protein folding model using replica exchange simulations: a kinetic network and effective stochastic dynamics. J Phys Chem B (2009) 0.96
Relation between free energy landscapes of proteins and dynamics. J Chem Theory Comput (2010) 0.96
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Large-scale asynchronous and distributed multidimensional replica exchange molecular simulations and efficiency analysis. J Comput Chem (2015) 0.92
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Characterization of the protein unfolding processes induced by urea and temperature. Biophys J (2007) 0.91
pH-replica exchange molecular dynamics in proteins using a discrete protonation method. J Phys Chem B (2012) 0.90
An extensible interface for QM/MM molecular dynamics simulations with AMBER. J Comput Chem (2013) 0.90
Conformational populations of ligand-sized molecules by replica exchange molecular dynamics and temperature reweighting. J Comput Chem (2010) 0.90
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Generalized simulated tempering for exploring strong phase transitions. J Chem Phys (2010) 0.85
The Amber ff99 Force Field Predicts Relative Free Energy Changes for RNA Helix Formation. J Chem Theory Comput (2012) 0.84
Molecular dynamics simulations using temperature-enhanced essential dynamics replica exchange. Biophys J (2007) 0.84
Folding of Trp-cage mini protein using temperature and biasing potential replica-exchange molecular dynamics simulations. Int J Mol Sci (2009) 0.84
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A generalized conformational energy function of DNA derived from molecular dynamics simulations. Nucleic Acids Res (2009) 0.80
Finding Our Way in the Dark Proteome. J Am Chem Soc (2016) 0.80
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Computational design and experimental discovery of an antiestrogenic peptide derived from alpha-fetoprotein. J Am Chem Soc (2007) 0.79
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Comparing generalized ensemble methods for sampling of systems with many degrees of freedom. J Chem Phys (2016) 0.75
Further along the Road Less Traveled: AMBER ff15ipq, an Original Protein Force Field Built on a Self-Consistent Physical Model. J Chem Theory Comput (2016) 0.75
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