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Brownian dynamics simulations of biological molecules
GA Huber, JA McCammon - Trends in chemistry, 2019 - cell.com
Brownian dynamics (BD) is a technique for carrying out computer simulations of physical
systems that are driven by thermal fluctuations. Biological systems at the macromolecular …
systems that are driven by thermal fluctuations. Biological systems at the macromolecular …
[HTML][HTML] The physics of active polymers and filaments
Active matter agents consume internal energy or extract energy from the environment for
locomotion and force generation. Already, rather generic models, such as ensembles of …
locomotion and force generation. Already, rather generic models, such as ensembles of …
Tangentially driven active polar linear polymers—An analytical study
The conformational and dynamical properties of isolated flexible active polar linear polymers
(APLPs) are studied analytically. The APLPs are modeled as Gaussian bead-spring linear …
(APLPs) are studied analytically. The APLPs are modeled as Gaussian bead-spring linear …
Collective dynamics of self-propelled semiflexible filaments
The collective behavior of active semiflexible filaments is studied with a model of tangentially
driven self-propelled worm-like chains. The combination of excluded-volume interactions …
driven self-propelled worm-like chains. The combination of excluded-volume interactions …
Dynamics of active polar ring polymers
The conformational and dynamical properties of isolated semiflexible active polar ring
polymers are investigated analytically. A ring is modeled as a continuous Gaussian polymer …
polymers are investigated analytically. A ring is modeled as a continuous Gaussian polymer …
Constrained motion of self-propelling eccentric disks linked by a spring
T Xu, C Qin, B Tang, J Gao, J Zhou, K Chen… - The Journal of …, 2024 - pubs.aip.org
It has been supposed that the interplay of elasticity and activity plays a key role in triggering
the non-equilibrium behaviors in biological systems. However, the experimental model …
the non-equilibrium behaviors in biological systems. However, the experimental model …
Density and inertia effects on two-dimensional active semiflexible filament suspensions
We examine the influence of density on the transition between chain and spiral structures in
planar assemblies of active semiflexible filaments, utilizing detailed numerical simulations …
planar assemblies of active semiflexible filaments, utilizing detailed numerical simulations …
Active Brownian ring polymers
The conformational and dynamical properties of semiflexible active Brownian ring polymers
are investigated analytically. A ring is described by the Gaussian semiflexible polymer …
are investigated analytically. A ring is described by the Gaussian semiflexible polymer …
Non-equilibrium effects of molecular motors on polymers
We present a generic coarse-grained model to describe molecular motors acting on polymer
substrates, mimicking, for example, RNA polymerase on DNA or kinesin on microtubules …
substrates, mimicking, for example, RNA polymerase on DNA or kinesin on microtubules …
Local polar and long-range isotropic activity assisted swelling and collapse dynamics of an active ring polymer
The circular and ring structures in many synthetic or natural systems simultaneously
experience local and long-range forces. In this work, we use numerical simulations to …
experience local and long-range forces. In this work, we use numerical simulations to …