Literature DB >> 20059054

Coupling atomistic and continuum hydrodynamics through a mesoscopic model: application to liquid water.

Rafael Delgado-Buscalioni1, Kurt Kremer, Matej Praprotnik.   

Abstract

We have conducted a triple-scale simulation of liquid water by concurrently coupling atomistic, mesoscopic, and continuum models of the liquid. The presented triple-scale hydrodynamic solver for molecular liquids enables the insertion of large molecules into the atomistic domain through a mesoscopic region. We show that the triple-scale scheme is robust against the details of the mesoscopic model owing to the conservation of linear momentum by the adaptive resolution forces. Our multiscale approach is designed for molecular simulations of open domains with relatively large molecules, either in the grand canonical ensemble or under nonequilibrium conditions.

Entities:  

Year:  2009        PMID: 20059054     DOI: 10.1063/1.3272265

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  11 in total

1.  Open-Boundary Molecular Dynamics of a DNA Molecule in a Hybrid Explicit/Implicit Salt Solution.

Authors:  Julija Zavadlav; Jurij Sablić; Rudolf Podgornik; Matej Praprotnik
Journal:  Biophys J       Date:  2018-04-09       Impact factor: 4.033

2.  Hybrid molecular-continuum simulations using smoothed dissipative particle dynamics.

Authors:  Nikolai D Petsev; L Gary Leal; M Scott Shell
Journal:  J Chem Phys       Date:  2015-01-28       Impact factor: 3.488

3.  Mesoscopic Adaptive Resolution Scheme toward Understanding of Interactions between Sickle Cell Fibers.

Authors:  Lu Lu; He Li; Xin Bian; Xuejin Li; George Em Karniadakis
Journal:  Biophys J       Date:  2017-07-11       Impact factor: 4.033

Review 4.  Adaptive resolution simulations of biomolecular systems.

Authors:  Julija Zavadlav; Staš Bevc; Matej Praprotnik
Journal:  Eur Biophys J       Date:  2017-09-13       Impact factor: 1.733

5.  Communication: Adaptive boundaries in multiscale simulations.

Authors:  Jason A Wagoner; Vijay S Pande
Journal:  J Chem Phys       Date:  2018-04-14       Impact factor: 3.488

Review 6.  Bottom-up Coarse-Graining: Principles and Perspectives.

Authors:  Jaehyeok Jin; Alexander J Pak; Aleksander E P Durumeric; Timothy D Loose; Gregory A Voth
Journal:  J Chem Theory Comput       Date:  2022-09-07       Impact factor: 6.578

Review 7.  Spatially extended hybrid methods: a review.

Authors:  Cameron A Smith; Christian A Yates
Journal:  J R Soc Interface       Date:  2018-02       Impact factor: 4.118

8.  Multi-resolution dimer models in heat baths with short-range and long-range interactions.

Authors:  Ravinda S Gunaratne; Daniel B Wilson; Mark B Flegg; Radek Erban
Journal:  Interface Focus       Date:  2019-04-19       Impact factor: 3.906

9.  Path Integral Molecular Dynamics of Liquid Water in a Mean-Field Particle Reservoir.

Authors:  Antonios Evangelakis; Sara Panahian Jand; Luigi Delle Site
Journal:  ChemistryOpen       Date:  2022-02-25       Impact factor: 2.630

Review 10.  From adaptive resolution to molecular dynamics of open systems.

Authors:  Robinson Cortes-Huerto; Matej Praprotnik; Kurt Kremer; Luigi Delle Site
Journal:  Eur Phys J B       Date:  2021-09-23       Impact factor: 1.500

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