Understanding and modeling polymers: The challenge of multiple scales

F Schmid - ACS Polymers Au, 2022 - ACS Publications
Polymer materials are multiscale systems by definition. Already the description of a single
macromolecule involves a multitude of scales, and cooperative processes in polymer …

Generalized Langevin equation with a nonlinear potential of mean force and nonlinear memory friction from a hybrid projection scheme

C Ayaz, L Scalfi, BA Dalton, RR Netz - Physical review E, 2022 - APS
We introduce a hybrid projection scheme that combines linear Mori projection and
conditional Zwanzig projection techniques and use it to derive a generalized Langevin …

Derivation of the nonequilibrium generalized Langevin equation from a time-dependent many-body Hamiltonian

RR Netz - Physical Review E, 2024 - APS
It has become standard practice to describe systems that remain far from equilibrium even in
their steady state by Langevin equations with colored noise which is chosen independently …

Bottom-up informed and iteratively optimized coarse-grained non-Markovian water models with accurate dynamics

V Klippenstein, NFA van der Vegt - Journal of Chemical Theory …, 2023 - ACS Publications
Molecular dynamics (MD) simulations based on coarse-grained (CG) particle models of
molecular liquids generally predict accelerated dynamics and misrepresent the time scales …

Dynamic coarse-graining of linear and non-linear systems: Mori–Zwanzig formalism and beyond

B Jung, G Jung - The Journal of Chemical Physics, 2023 - pubs.aip.org
To investigate the impact of non-linear interactions on dynamic coarse graining, we study a
simplified model system featuring a tracer particle in a complex environment. Using a …

Comparison of friction parametrization from dynamics and material properties for a coarse-grained polymer melt

LC Johnson, FR Phelan Jr - The Journal of Physical Chemistry B, 2023 - ACS Publications
In this work, we extend an approach to coarse-grained (CG) modeling for polymer melts in
which the conservative potential is parametrized using the iterative Boltzmann inversion (IBI) …

Derivation of the non-equilibrium generalized Langevin equation from a generic time-dependent Hamiltonian

RR Netz - arXiv preprint arXiv:2310.00748, 2023 - arxiv.org
It has been become standard practice to describe steady-state non-equilibrium phenomena
by Langevin equations with colored noise and time-dependent friction kernels that do not …

Sampling the bulk viscosity of water with molecular dynamics simulation in the canonical ensemble

R Hafner, G Guevara-Carrion, J Vrabec… - The Journal of Physical …, 2022 - ACS Publications
The bulk viscosity, a transport coefficient in the Navier–Stokes equation, is often neglected in
the continuum mechanics of Newtonian fluids. Recently, however, the role of the bulk …

Construction of coarse-grained molecular dynamics with many-body non-Markovian memory

L Lyu, H Lei - Physical Review Letters, 2023 - APS
We introduce a machine-learning-based coarse-grained molecular dynamics model that
faithfully retains the many-body nature of the intermolecular dissipative interactions. Unlike …

[HTML][HTML] Cross-correlation corrected friction in generalized Langevin models: Application to the continuous Asakura–Oosawa model

V Klippenstein, NFA van der Vegt - The Journal of Chemical Physics, 2022 - pubs.aip.org
The development of dynamically consistent coarse-grained models for molecular
simulations is often based on generalized Langevin equations, motivated by the application …