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Intracellular transport processes driven by molecular motors can be described by stochastic lattice models of self-driven particles. Here we focus on bidirectional transport models excluding the exchange of particles on the same track. We…

Biological Physics · Physics 2015-05-27 M. Ebbinghaus , C. Appert-Rolland , L. Santen

In this work, we report a new method to simulate active Brownian particles (ABPs) in molecular dynamics (MD) simulations. Immersed in a fluid, each ABP consists of a head particle and a spherical phantom region of fluid where the flagellum…

Soft Condensed Matter · Physics 2019-02-15 Liya Wang , Xinpeng Xu , Zhigang Li , Tiezheng Qian

Miniaturized, self-propelled locomotors use chemo-mechanical transduction mechanisms to convert fuel in the environment to autonomous motion. Recent experimental and theoretical studies demonstrate that these autonomous engines can…

Soft Condensed Matter · Physics 2018-02-07 Ali Mozaffari , Nima Sharifi-Mood , Joel Koplik , Charles Maldarelli

Crowded environments modify the diffusion of macromolecules, generally slowing their movement and inducing transient anomalous subdiffusion. The presence of obstacles also modifies the kinetics and equilibrium behavior of tracers. While…

Cell crawling crucially depends on the collective dynamics of the acto-myosin cytoskeleton. However, it remains an open question to what extent cell polarization and persistent motion depend on continuous regulatory mechanisms and…

Biological Physics · Physics 2023-08-11 Fenna Stegemerten , Karin John , Uwe Thiele

Brownian motion near soft surfaces is a situation widely encountered in nanoscale and biological physics. However, a complete theoretical description is lacking to date. Here, we theoretically investigate the dynamics of a two-dimensional…

Soft Condensed Matter · Physics 2025-10-01 Yilin Ye , Yacine Amarouchene , Raphaël Sarfati , David S. Dean , Thomas Salez

Time-variant systems have recently garnered considerable attention due to their unique potentials in manipulating electromagnetic waves. Here, a novel class of topological spacetime crystals is introduced, with a traveling-wave modulation…

Optics · Physics 2025-09-24 João C. Serra , Mário G. Silveirinha

A distinguishing feature of active particles is the nature of the non-equilibrium noise driving their dynamics. Control of these noise properties is, therefore, of both fundamental and applied interest. We demonstrate emergent tuning of the…

Soft Condensed Matter · Physics 2021-01-05 Aniruddh Murali , Pritha Dolai , Ashwini Krishna , K. Vijay Kumar , Shashi Thutupalli

Active Brownian particles, even without attractive and anisotropic inter-particle interactions, can form a high-density phase featuring structure-ordered domains as well as collective motion regions under thermal noise. However, the…

Soft Condensed Matter · Physics 2026-01-14 Cheng Yang , Qiandong Dai , Shun Xu , Xin Zhou

Motility is a fundamental survival strategy of bacteria to navigate porous environments. Swimming cells thrive in quiescent wetlands and sediments at the bottom of the marine water column, where they mediate many essential biogeochemical…

Soft Condensed Matter · Physics 2022-01-11 Amin Dehkharghani , Nicolas Waisbord , Jeffrey S. Guasto

Single-file transport in pore-like structures constitute an important topic for both theory and experiment. For hardcore interacting particles, a good understanding of the collective dynamics has been achieved recently. Here we study how…

Statistical Mechanics · Physics 2021-12-28 Alexander P. Antonov , Artem Ryabov , Philipp Maass

Using Brownian dynamics simulations, the motion of active Brownian particles (ABPs) in the presence of fuel (or 'food') sources is studied. It is an established fact that within confined stationary systems, the activity of ABPs generates…

Biological Physics · Physics 2020-07-01 Holger Merlitz , Hidde Derk Vuijk , Rene Wittmann , Abhinav Sharma , Jens-Uwe Sommer

Topographic maps are a brain structure connecting pre-synpatic and post-synaptic brain regions. Topographic development is dependent on Hebbian-based plasticity mechanisms working in conjunction with spontaneous patterns of neural activity…

Neurons and Cognition · Quantitative Biology 2025-01-15 Nicholas Gale , Jennifer Rodger , Michael Small , Stephen Eglen

We present and analyze mechanisms for the patterned deposition of particles in a spatio-temporally driven lattice. The working principle is based on the breaking of the spatio-temporal translation symmetry, which is responsible for the…

Chaotic Dynamics · Physics 2013-11-06 Benno Liebchen , Christoph Petri , Florian Lenz , Peter Schmelcher

Many complex structures and stochastic patterns emerge from simple kinetic rules and local interactions, and are governed by scale invariance properties in combination with effects of the global geometry. We consider systems that can be…

Statistical Mechanics · Physics 2013-09-17 Adnan Ali , Robin C. Ball , Stefan Grosskinsky , Ellak Somfai

The topologically protected transport of colloidal particles on top of magnetic patterns of all possible single lattice constant two dimensional magnetic point group symmetries is studied experimentally, theoretically, and with numerical…

We report on the discovery of a unidirectional continuous orbital motion of a single pair of nanoparticles which occurs spontaneously in room-temperature air and can be manipulated by light. By varying the relative position of two…

Mesoscale and Nanoscale Physics · Physics 2019-05-21 Mitsuyoshi Yoneda , Makoto Iwasaki , Kiyotaka Aikawa

We examine the behavior of $n$ Brownian particles diffusing on the real line with bounded, measurable drift and bounded, piecewise continuous diffusion coefficients that depend on the current configuration of particles. Sufficient…

Probability · Mathematics 2010-10-19 Tomoyuki Ichiba , Ioannis Karatzas

Particle transport in complex environments such as the interior of living cells is often (transiently) non-Fickian or anomalous, that is, it deviates from the laws of Brownian motion. Such anomalies may be the result of small-scale…

Statistical Mechanics · Physics 2022-02-15 Cai Dieball , Diego Krapf , Matthias Weiss , Aljaž Godec

Bacteria often traverse confined spaces to perform critical functions in symbiosis, infection, drug delivery, and soil bioremediation. While the canonical run-and-tumble strategy enables exploration, its reliance on constant sensing and…

Biological Physics · Physics 2026-03-04 Viet Sang Doan , Ali Nikkhah , Sangwoo Shin
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