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Introducing Memory in Coarse-Grained Molecular Simulations

[Image: see text] Preserving the correct dynamics at the coarse-grained (CG) level is a pressing problem in the development of systematic CG models in soft matter simulation. Starting from the seminal idea of simple time-scale mapping, there have been many efforts over the years toward establishing...

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Autores principales: Klippenstein, Viktor, Tripathy, Madhusmita, Jung, Gerhard, Schmid, Friederike, van der Vegt, Nico F. A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2021
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8154603/
https://www.ncbi.nlm.nih.gov/pubmed/33982567
http://dx.doi.org/10.1021/acs.jpcb.1c01120
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author Klippenstein, Viktor
Tripathy, Madhusmita
Jung, Gerhard
Schmid, Friederike
van der Vegt, Nico F. A.
author_facet Klippenstein, Viktor
Tripathy, Madhusmita
Jung, Gerhard
Schmid, Friederike
van der Vegt, Nico F. A.
author_sort Klippenstein, Viktor
collection PubMed
description [Image: see text] Preserving the correct dynamics at the coarse-grained (CG) level is a pressing problem in the development of systematic CG models in soft matter simulation. Starting from the seminal idea of simple time-scale mapping, there have been many efforts over the years toward establishing a meticulous connection between the CG and fine-grained (FG) dynamics based on fundamental statistical mechanics approaches. One of the most successful attempts in this context has been the development of CG models based on the Mori–Zwanzig (MZ) theory, where the resulting equation of motion has the form of a generalized Langevin equation (GLE) and closely preserves the underlying FG dynamics. In this Review, we describe some of the recent studies in this regard. We focus on the construction and simulation of dynamically consistent systematic CG models based on the GLE, both in the simple Markovian limit and the non-Markovian case. Some recent studies of physical effects of memory are also discussed. The Review is aimed at summarizing recent developments in the field while highlighting the major challenges and possible future directions.
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spelling pubmed-81546032021-05-27 Introducing Memory in Coarse-Grained Molecular Simulations Klippenstein, Viktor Tripathy, Madhusmita Jung, Gerhard Schmid, Friederike van der Vegt, Nico F. A. J Phys Chem B [Image: see text] Preserving the correct dynamics at the coarse-grained (CG) level is a pressing problem in the development of systematic CG models in soft matter simulation. Starting from the seminal idea of simple time-scale mapping, there have been many efforts over the years toward establishing a meticulous connection between the CG and fine-grained (FG) dynamics based on fundamental statistical mechanics approaches. One of the most successful attempts in this context has been the development of CG models based on the Mori–Zwanzig (MZ) theory, where the resulting equation of motion has the form of a generalized Langevin equation (GLE) and closely preserves the underlying FG dynamics. In this Review, we describe some of the recent studies in this regard. We focus on the construction and simulation of dynamically consistent systematic CG models based on the GLE, both in the simple Markovian limit and the non-Markovian case. Some recent studies of physical effects of memory are also discussed. The Review is aimed at summarizing recent developments in the field while highlighting the major challenges and possible future directions. American Chemical Society 2021-05-13 2021-05-20 /pmc/articles/PMC8154603/ /pubmed/33982567 http://dx.doi.org/10.1021/acs.jpcb.1c01120 Text en © 2021 The Authors. Published by American Chemical Society Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Klippenstein, Viktor
Tripathy, Madhusmita
Jung, Gerhard
Schmid, Friederike
van der Vegt, Nico F. A.
Introducing Memory in Coarse-Grained Molecular Simulations
title Introducing Memory in Coarse-Grained Molecular Simulations
title_full Introducing Memory in Coarse-Grained Molecular Simulations
title_fullStr Introducing Memory in Coarse-Grained Molecular Simulations
title_full_unstemmed Introducing Memory in Coarse-Grained Molecular Simulations
title_short Introducing Memory in Coarse-Grained Molecular Simulations
title_sort introducing memory in coarse-grained molecular simulations
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8154603/
https://www.ncbi.nlm.nih.gov/pubmed/33982567
http://dx.doi.org/10.1021/acs.jpcb.1c01120
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