Moving least-squares enhanced Shepard interpolation for the fast marching and string methods.
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Paul W Ayers | Utpal Sarkar | Steven K. Burger | Steven K Burger | U. Sarkar | P. Ayers | Yu-Liang Liu | Yuli Liu
[1] A Fast Method to Simulate Travelling Waves in Nonhomogeneous Chemical or Biological Media , 2001, nlin/0112020.
[2] M. A. Collins,et al. The utility of higher order derivatives in constructing molecular potential energy surfaces by interpolation , 1995 .
[3] M. A. Collins,et al. Molecular potential energy surfaces by interpolation , 1994 .
[4] D. Wales,et al. A doubly nudged elastic band method for finding transition states. , 2004, The Journal of chemical physics.
[5] Michael A. Collins,et al. Molecular potential-energy surfaces for chemical reaction dynamics , 2002 .
[6] Weitao Yang,et al. Ab initio QM/MM study shows there is no general acid in the reaction catalyzed by 4-oxalocrotonate tautomerase. , 2003, Journal of the American Chemical Society.
[7] Michael A. Collins,et al. Learning to interpolate molecular potential energy surfaces with confidence: A Bayesian approach , 1999 .
[8] David J Wales,et al. Folding of the GB1 hairpin peptide from discrete path sampling. , 2004, The Journal of chemical physics.
[9] W. E,et al. Finite temperature string method for the study of rare events. , 2002, Journal of Physical Chemistry B.
[10] G. Henkelman,et al. A climbing image nudged elastic band method for finding saddle points and minimum energy paths , 2000 .
[11] E. Vanden-Eijnden,et al. String method for the study of rare events , 2002, cond-mat/0205527.
[12] George C. Schatz,et al. The analytical representation of electronic potential-energy surfaces , 1989 .
[13] H. Huber,et al. Non-Hamiltonian molecular dynamics implementation of the Gibbs ensemble method. I. Algorithm. , 2007, The Journal of chemical physics.
[14] Jerry M. Parks,et al. Quantum mechanics/molecular mechanics minimum free-energy path for accurate reaction energetics in solution and enzymes: sequential sampling and optimization on the potential of mean force surface. , 2008, The Journal of chemical physics.
[15] G. Henkelman,et al. Improved tangent estimate in the nudged elastic band method for finding minimum energy paths and saddle points , 2000 .
[16] D. Truhlar. Potential Energy Surfaces and Dynamics Calculations , 1981 .
[17] Paul W. Ayers,et al. Computing tunneling paths with the Hamilton–Jacobi equation and the fast marching method , 2007 .
[18] David J Wales,et al. Effect of salt bridges on the energy landscape of a model protein. , 2004, The Journal of chemical physics.
[19] Richard Dawes,et al. Interpolating moving least-squares methods for fitting potential energy surfaces: computing high-density potential energy surface data from low-density ab initio data points. , 2007, The Journal of chemical physics.
[20] H. Jónsson,et al. Nudged elastic band method for finding minimum energy paths of transitions , 1998 .
[21] Steven K. Burger,et al. Quadratic string method for determining the minimum-energy path based on multiobjective optimization. , 2006, The Journal of chemical physics.
[22] George C. Schatz,et al. A local interpolation scheme using no derivatives in quantum-chemical calculations , 1999 .
[23] George C. Schatz,et al. A local interpolation scheme using no derivatives in potential sampling: Application to O(1D) + H2 system , 2003, J. Comput. Chem..
[24] William H. Miller. Dynamics of Molecular Collisions , 1976 .
[25] E. Rouy,et al. A viscosity solutions approach to shape-from-shading , 1992 .
[26] Bernard R. Brooks,et al. Exploring the quantum mechanical/molecular mechanical replica path method: a pathway optimization of the chorismate to prephenate Claisen rearrangement catalyzed by chorismate mutase , 2003 .
[27] Steven K. Burger,et al. Sequential quadratic programming method for determining the minimum energy path. , 2007, The Journal of chemical physics.
[28] A CFL-like constraint for the fast marching method in inhomogeneous chemical kinetics , 2008 .
[29] Paul W. Ayers,et al. Fast Marching Method for Calculating Reactive Trajectories for Chemical Reactions , 2007 .
[30] G. Ciccotti,et al. String method in collective variables: minimum free energy paths and isocommittor surfaces. , 2006, The Journal of chemical physics.
[31] P. Pechukas. Statistical Approximations in Collision Theory , 1976 .
[32] Reinhard Farwig,et al. Rate of convergence of Shepard's global interpolation formula , 1986 .
[33] H. Schlegel,et al. A combined method for determining reaction paths, minima, and transition state geometries , 1997 .
[34] Weitao Yang,et al. Reaction path determination for quantum mechanical/molecular mechanical modeling of enzyme reactions by combining first order and second order "chain-of-replicas" methods. , 2005, The Journal of chemical physics.
[35] Wolfgang Quapp,et al. A growing string method for the reaction pathway defined by a Newton trajectory. , 2005, The Journal of chemical physics.
[36] H. Werner,et al. Local interpolation of ab initio potential energy surfaces for direct dynamics studies of chemical reactions , 1999 .
[37] A. Chakraborty,et al. A growing string method for determining transition states: comparison to the nudged elastic band and string methods. , 2004, The Journal of chemical physics.
[38] Pathways for conformational change in nitrogen regulatory protein C from discrete path sampling. , 2008, The journal of physical chemistry. B.
[39] David J. Wales,et al. Global optimization and folding pathways of selected α-helical proteins , 2005 .
[40] Paul W Ayers,et al. Hamilton-Jacobi equation for the least-action/least-time dynamical path based on fast marching method. , 2004, The Journal of chemical physics.
[41] Weitao Yang,et al. QM/MM Minimum Free Energy Path: Methodology and Application to Triosephosphate Isomerase. , 2007, Journal of chemical theory and computation.
[42] P. Ayers,et al. A Hamilton–Jacobi type equation for computing minimum potential energy paths , 2006 .
[43] M. Tuckerman,et al. IN CLASSICAL AND QUANTUM DYNAMICS IN CONDENSED PHASE SIMULATIONS , 1998 .
[44] Akio Kawano,et al. Improving the accuracy of interpolated potential energy surfaces by using an analytical zeroth-order potential function. , 2004, The Journal of chemical physics.