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For: Omelyan IP, Kovalenko A. Multiple time scale molecular dynamics for fluids with orientational degrees of freedom. II. Canonical and isokinetic ensembles. J Chem Phys 2012;135:234107. [PMID: 22191864 DOI: 10.1063/1.3669385] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]  Open
Number Cited by Other Article(s)
1
Kar R, Mandal S, Thakkur V, Meyer B, Nair NN. Speeding-up Hybrid Functional-Based Ab Initio Molecular Dynamics Using Multiple Time-stepping and Resonance-Free Thermostat. J Chem Theory Comput 2023;19:8351-8364. [PMID: 37933121 DOI: 10.1021/acs.jctc.3c00964] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2023]
2
Omelyan I, Kovalenko A. Enhanced solvation force extrapolation for speeding up molecular dynamics simulations of complex biochemical liquids. J Chem Phys 2019;151:214102. [PMID: 31822083 DOI: 10.1063/1.5126410] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]  Open
3
Kovalenko A, Gusarov S. Multiscale methods framework: self-consistent coupling of molecular theory of solvation with quantum chemistry, molecular simulations, and dissipative particle dynamics. Phys Chem Chem Phys 2018;20:2947-2969. [DOI: 10.1039/c7cp05585d] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
4
Leimkuhler B, Matthews C. Efficient molecular dynamics using geodesic integration and solvent-solute splitting. Proc Math Phys Eng Sci 2016;472:20160138. [PMID: 27279779 PMCID: PMC4893190 DOI: 10.1098/rspa.2016.0138] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2016] [Accepted: 04/08/2016] [Indexed: 12/03/2022]  Open
5
Margul DT, Tuckerman ME. A Stochastic, Resonance-Free Multiple Time-Step Algorithm for Polarizable Models That Permits Very Large Time Steps. J Chem Theory Comput 2016;12:2170-80. [PMID: 27054809 DOI: 10.1021/acs.jctc.6b00188] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
6
Itoh SG, Morishita T, Okumura H. Decomposition-order effects of time integrator on ensemble averages for the Nosé-Hoover thermostat. J Chem Phys 2014;139:064103. [PMID: 23947839 DOI: 10.1063/1.4817194] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]  Open
7
Omelyan I, Kovalenko A. Multiple time step molecular dynamics in the optimized isokinetic ensemble steered with the molecular theory of solvation: accelerating with advanced extrapolation of effective solvation forces. J Chem Phys 2014;139:244106. [PMID: 24387356 DOI: 10.1063/1.4848716] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]  Open
8
Leimkuhler B, Margul DT, Tuckerman ME. Stochastic, resonance-free multiple time-step algorithm for molecular dynamics with very large time steps. Mol Phys 2013. [DOI: 10.1080/00268976.2013.844369] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
9
Multiscale modeling of solvation in chemical and biological nanosystems and in nanoporous materials. PURE APPL CHEM 2013. [DOI: 10.1351/pac-con-12-06-03] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
10
Omelyan I, Kovalenko A. Generalised canonical–isokinetic ensemble: speeding up multiscale molecular dynamics and coupling with 3D molecular theory of solvation. MOLECULAR SIMULATION 2013. [DOI: 10.1080/08927022.2012.700486] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
11
Omelyan I, Kovalenko A. Interpretation of atomic motion in flexible molecules: accelerating molecular dynamics simulations. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2012;85:026706. [PMID: 22463356 DOI: 10.1103/physreve.85.026706] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2011] [Indexed: 05/31/2023]
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