Literature DB >> 21468407

Multiscale modeling of soft matter: scaling of dynamics.

Dominik Fritz1, Konstantin Koschke, Vagelis A Harmandaris, Nico F A van der Vegt, Kurt Kremer.   

Abstract

Many physical phenomena and properties of soft matter systems are characterized by an interplay of interactions and processes that span a wide range of length- and time scales. Computer simulation approaches require models, which cover these scales. These are typically multiscale models that combine and link different levels of resolution. In order to reach mesoscopic time- and length scales, necessary to access material properties, coarse-grained models are developed. They are based on microscopic, atomistic descriptions of systems and represent these systems on a coarser, mesoscopic level. While the connection between length scales can be established immediately, the link between the different time scales that takes into account the faster dynamics of the coarser system cannot be obtained directly. In this perspective paper we discuss methods that link the time scales in structure based multiscale models. Concepts which try to rigorously map dynamics of related models are limited to simple model systems, while the challenge in soft matter systems is the multitude of fluctuating energy barriers of comparable height. More pragmatic methods to match time scales are applied successfully to quantitatively understand and predict dynamics of one-component soft matter systems. However, there are still open questions. We point out that the link between the dynamics on different resolution levels can be affected by slight changes of the system, as for different tacticities. Furthermore, in two-component systems the dynamics of the host polymer and of additives are accelerated very differently. This journal is © the Owner Societies 2011

Entities:  

Year:  2011        PMID: 21468407     DOI: 10.1039/c1cp20247b

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  10 in total

1.  Energy Renormalization for Coarse-Graining the Dynamics of a Model Glass-Forming Liquid.

Authors:  Wenjie Xia; Jake Song; Nitin K Hansoge; Frederick R Phelan; Sinan Keten; Jack F Douglas
Journal:  J Phys Chem B       Date:  2018-02-05       Impact factor: 2.991

2.  Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation.

Authors:  Melanie P Muller; Tao Jiang; Chang Sun; Muyun Lihan; Shashank Pant; Paween Mahinthichaichan; Anda Trifan; Emad Tajkhorshid
Journal:  Chem Rev       Date:  2019-04-12       Impact factor: 60.622

Review 3.  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

4.  Relative Entropy and Optimization-Driven Coarse-Graining Methods in VOTCA.

Authors:  S Y Mashayak; Mara N Jochum; Konstantin Koschke; N R Aluru; Victor Rühle; Christoph Junghans
Journal:  PLoS One       Date:  2015-07-20       Impact factor: 3.240

5.  Onset of static and dynamic universality among molecular models of polymers.

Authors:  Kazuaki Z Takahashi; Ryuto Nishimura; Nobuyoshi Yamato; Kenji Yasuoka; Yuichi Masubuchi
Journal:  Sci Rep       Date:  2017-09-28       Impact factor: 4.379

6.  Large-scale simulation of biomembranes incorporating realistic kinetics into coarse-grained models.

Authors:  Mohsen Sadeghi; Frank Noé
Journal:  Nat Commun       Date:  2020-06-11       Impact factor: 14.919

7.  Determining Sequence-Dependent DNA Oligonucleotide Hybridization and Dehybridization Mechanisms Using Coarse-Grained Molecular Simulation, Markov State Models, and Infrared Spectroscopy.

Authors:  Michael S Jones; Brennan Ashwood; Andrei Tokmakoff; Andrew L Ferguson
Journal:  J Am Chem Soc       Date:  2021-10-13       Impact factor: 15.419

8.  Effects of Coarse Graining and Saturation of Hydrocarbon Chains on Structure and Dynamics of Simulated Lipid Molecules.

Authors:  Pavel Buslaev; Ivan Gushchin
Journal:  Sci Rep       Date:  2017-09-13       Impact factor: 4.379

9.  Performance of Coarse Graining in Estimating Polymer Properties: Comparison with the Atomistic Model.

Authors:  Ryota Miwatani; Kazuaki Z Takahashi; Noriyoshi Arai
Journal:  Polymers (Basel)       Date:  2020-02-08       Impact factor: 4.329

Review 10.  Quantitative Synaptic Biology: A Perspective on Techniques, Numbers and Expectations.

Authors:  Sofiia Reshetniak; Rubén Fernández-Busnadiego; Marcus Müller; Silvio O Rizzoli; Christian Tetzlaff
Journal:  Int J Mol Sci       Date:  2020-10-02       Impact factor: 5.923

  10 in total

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