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Practical aspects of free-energy calculations: a review
N Hansen, WF Van Gunsteren - Journal of chemical theory and …, 2014 - ACS Publications
Free-energy calculations in the framework of classical molecular dynamics simulations are
nowadays used in a wide range of research areas including solvation thermodynamics …
nowadays used in a wide range of research areas including solvation thermodynamics …
Recent advances in the continuous fractional component Monte Carlo methodology
In this paper, we review recent advances in the Continuous Fractional Component Monte
Carlo (CFCMC) methodology and present a historic overview of the most important …
Carlo (CFCMC) methodology and present a historic overview of the most important …
Dissipative particle dynamics: Systematic parametrization using water-octanol partition coefficients
We present a systematic, top-down, thermodynamic parametrization scheme for dissipative
particle dynamics (DPD) using water-octanol partition coefficients, supplemented by water …
particle dynamics (DPD) using water-octanol partition coefficients, supplemented by water …
The contribution of the ion–ion and ion–solvent interactions in a molecular thermodynamic treatment of electrolyte solutions
Develo** molecular equations of state to treat electrolyte solutions is challenging due to
the long-range nature of the Coulombic interactions. Seminal approaches commonly used …
the long-range nature of the Coulombic interactions. Seminal approaches commonly used …
A site density functional theory for water: Application to solvation of amino acid side chains
We report a site density functional theory (SDFT) based on the conventional atomistic
models of water and the universality ansatz of the bridge functional. The excess Helmholtz …
models of water and the universality ansatz of the bridge functional. The excess Helmholtz …
Partial atomic charges and their impact on the free energy of solvation
Free energies of solvation (ΔG) in water and n‐octanol have been computed for common
drug molecules by molecular dynamics simulations with an additive fixed‐charge force field …
drug molecules by molecular dynamics simulations with an additive fixed‐charge force field …
Dissolution of cellulose in room temperature ionic liquids: anion dependence
The dissolution of cellulosic biomass in room temperature ionic liquids (RTILs) is studied
through free energy calculations of its monomer, viz., cellobiose, within a molecular …
through free energy calculations of its monomer, viz., cellobiose, within a molecular …
Performing solvation free energy calculations in LAMMPS using the decoupling approach
The decoupling approach to solvation free energy calculations requires scaling the
interactions between the solute and the solution with all intramolecular interactions …
interactions between the solute and the solution with all intramolecular interactions …
Predicting the solubility of solid phenanthrene: a combined molecular simulation and group contribution approach
A simple correction to the infinite dilution activity coefficient computed via molecular
simulation for a nonelectrolyte solid solute in solution is proposed. The methodology adopts …
simulation for a nonelectrolyte solid solute in solution is proposed. The methodology adopts …
Small molecule solvation free energy: Enhanced conformational sampling using expanded ensemble molecular dynamics simulation
We present an efficient expanded ensemble molecular dynamics method to calculate the
solvation free energy (or residual chemical potential) of small molecules with complex …
solvation free energy (or residual chemical potential) of small molecules with complex …