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A Hybrid Immersed Boundary/Coarse-Graining Method for Modeling Inextensible Semi-Flexible Filaments in Thermally Fluctuating Fluids

Magdalini Ntetsika, Panayiotis Papadopoulos*

Department of Mechanical Engineering, University of California, Berkeley, CA, 94720-1740, USA

* Corresponding Author:Panayiotis Papadopoulos. Email: email

(This article belongs to the Special Issue: Advances in Computational Mechanics and Optimization
To celebrate the 95th birthday of Professor Karl Stark Pister
)

Computer Modeling in Engineering & Sciences 2021, 129(3), 1243-1258. https://doi.org/10.32604/cmes.2021.017404

Abstract

A new and computationally efficient version of the immersed boundary method, which is combined with the coarse-graining method, is introduced for modeling inextensible filaments immersed in low-Reynolds number flows. This is used to represent actin biopolymers, which are constituent elements of the cytoskeleton, a complex network-like structure that plays a fundamental role in shape morphology. An extension of the traditional immersed boundary method to include a stochastic stress tensor is also proposed in order to model the thermal fluctuations in the fluid at smaller scales. By way of validation, the response of a single, massless, inextensible semiflexible filament immersed in a thermally fluctuating fluid is obtained using the suggested numerical scheme and the resulting time-averaged contraction of the filament is compared to the theoretical value obtained from the worm-like chain model.

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APA Style
Ntetsika, M., Papadopoulos, P. (2021). A hybrid immersed boundary/coarse-graining method for modeling inextensible semi-flexible filaments in thermally fluctuating fluids. Computer Modeling in Engineering & Sciences, 129(3), 1243-1258. https://doi.org/10.32604/cmes.2021.017404
Vancouver Style
Ntetsika M, Papadopoulos P. A hybrid immersed boundary/coarse-graining method for modeling inextensible semi-flexible filaments in thermally fluctuating fluids. Comput Model Eng Sci. 2021;129(3):1243-1258 https://doi.org/10.32604/cmes.2021.017404
IEEE Style
M. Ntetsika and P. Papadopoulos, "A Hybrid Immersed Boundary/Coarse-Graining Method for Modeling Inextensible Semi-Flexible Filaments in Thermally Fluctuating Fluids," Comput. Model. Eng. Sci., vol. 129, no. 3, pp. 1243-1258. 2021. https://doi.org/10.32604/cmes.2021.017404



cc Copyright © 2021 The Author(s). Published by Tech Science Press.
This work is licensed under a Creative Commons Attribution 4.0 International License , which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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