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Deriving effective mesoscale potentials from atomistic simulations: Mesoscale Potentials from Atomistic Simulations
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The power of coarse graining in biomolecular simulations: The power of coarse graining in biomolecular simulations
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Wiley Interdisciplinary Reviews: Computational Molecular Science, Vol. 4, Issue 3
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A uniqueness theorem for fluid pair correlation functions
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Enhancing sparsity of Hermite polynomial expansions by iterative rotations
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Mesoscale modeling: solving complex flows in biology and biotechnology
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July 2013 |
GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation
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February 2008 |
Versatile Object-Oriented Toolkit for Coarse-Graining Applications
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November 2009 |
A Multiscale Coarse-Graining Method for Biomolecular Systems
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February 2005 |
Rheology, Microstructure and Migration in Brownian Colloidal Suspensions
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January 2010 |
Direct Molecular Dynamics Simulation of Branch Point Motion in Asymmetric Star Polymer Melts
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May 2007 |
Simultaneous Iterative Boltzmann Inversion for Coarse-Graining of Polyurea
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May 2014 |
Effective Interaction between Star Polymers
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Mori–Zwanzig formalism as a practical computational tool
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Obtaining fully dynamic coarse-grained models from MD
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Construction of dissipative particle dynamics models for complex fluids via the Mori–Zwanzig formulation
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Mesoscale modeling of phase transition dynamics of thermoresponsive polymers
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January 2015 |
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Multiscale coarse graining of liquid-state systems
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Adaptive resolution molecular-dynamics simulation: Changing the degrees of freedom on the fly
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Simulating flow of DNA suspension using dissipative particle dynamics
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January 2006 |
The multiscale coarse-graining method. II. Numerical implementation for coarse-grained molecular models
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June 2008 |
The multiscale coarse-graining method. I. A rigorous bridge between atomistic and coarse-grained models
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The relative entropy is fundamental to multiscale and inverse thermodynamic problems
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Dynamics of entangled linear polymer melts: A molecular‐dynamics simulation
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Dissipative particle dynamics: Bridging the gap between atomistic and mesoscopic simulation
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Effective potentials for representing polymers in melts as chains of interacting soft particles
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September 2013 |
Transport dissipative particle dynamics model for mesoscopic advection-diffusion-reaction problems
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July 2015 |
Incorporation of memory effects in coarse-grained modeling via the Mori-Zwanzig formalism
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December 2015 |
The fluctuation-dissipation theorem
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Probing red blood cell mechanics, rheology and dynamics with a two-component multi-scale model
- Li, Xuejin; Peng, Zhangli; Lei, Huan
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Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, Vol. 372, Issue 2021
https://doi.org/10.1098/rsta.2013.0389
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Hydrodynamics from dissipative particle dynamics
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Calculation of effective interaction potentials from radial distribution functions: A reverse Monte Carlo approach
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Static and dynamic properties of dissipative particle dynamics
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Vapor-liquid coexistence in many-body dissipative particle dynamics
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December 2003 |
Equation of motion for coarse-grained simulation based on microscopic description
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May 2007 |
Direct construction of mesoscopic models from microscopic simulations
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February 2010 |
No-go theorem in many-body dissipative particle dynamics
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April 2013 |
High-Order Collocation Methods for Differential Equations with Random Inputs
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January 2005 |
Uncertainty Quantification in MD Simulations. Part II: Bayesian Inference of Force-Field Parameters
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January 2012 |
Constructing Surrogate Models of Complex Systems with Enhanced Sparsity: Quantifying the Influence of Conformational Uncertainty in Biomolecular Solvation
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January 2015 |
The Wiener--Askey Polynomial Chaos for Stochastic Differential Equations
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January 2002 |
Comparative atomistic and coarse-grained study of water: What do we lose by coarse-graining?
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Statistical-Mechanical Theory of Irreversible Processes. I. General Theory and Simple Applications to Magnetic and Conduction Problems
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Transport, Collective Motion, and Brownian Motion
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Coarse-Graining Methods for Computational Biology
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Simulating Microscopic Hydrodynamic Phenomena with Dissipative Particle Dynamics
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Interatomic Potentials from First-Principles Calculations: The Force-Matching Method
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Statistical Mechanics of Dissipative Particle Dynamics
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Enhancing Sparsity of Hermite Polynomial Expansions by Iterative Rotations
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Vapour-liquid coexistence in many-body dissipative particle dynamics
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Interatomic potentials from first-principles calculations: the force-matching method
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