Computational tools for cellular scale biophysics

DB Stein, MJ Shelley - Current Opinion in Cell Biology, 2024 - Elsevier
Mathematical models are indispensable for disentangling the interactions through which
biological components work together to generate the forces and flows that position, mix, and …

[HTML][HTML] Computational fluid–structure interaction in biology and soft robots: A review

R Pramanik, R Verstappen, PR Onck - Physics of Fluids, 2024 - pubs.aip.org
The omnipresence of fluid–structure interaction (FSI) in biological systems is indisputable—
from the vibration of leaves to the locomotion of fish, to the flying of birds, and to the …

Nonthermal fluctuations accelerate biomolecular motors

T Ariga - Biophysical Reviews, 2024 - Springer
Intracellular transport is essential for maintaining cellular function. This process is driven by
different mechanisms in prokaryotic and eukaryotic cells. In small prokaryotic cells, diffusion …

A simulation platform for slender, semiflexible, and inextensible fibers with Brownian hydrodynamics and steric repulsion

O Maxian, A Donev - Physics of Fluids, 2024 - pubs.aip.org
The last few years have witnessed an explosion of new numerical methods for filament
hydrodynamics. Aside from their ubiquity in biology, physics, and engineering, filaments …

[PDF][PDF] Swirling Instability Mediated by Elastic and Hydrodynamic Couplings in Cytoplasmic Streaming

T Ishikawa, T Torisawa, H Wada, A Kimura - PRX Life, 2025 - APS
Cytoplasmic streaming is driven by molecular motors that move along the cytoskeleton and
entrain the surrounding fluid. In certain cell types, the direction of cytoplasmic streaming is …

Flows, self-organization, and transport in living cells

MJ Shelley - Physical Review Fluids, 2024 - APS
This paper briefly reprises, with added commentary, a talk I gave on transport and flows
within living cells at an APS-DFD meeting. Directed transport is especially important in large …