Toward task capable active matter: learning to avoid clogging in confined collectives via collisions

June 12, 2022

Kehinde O. Aina, Ram Avinery, Hui-Shun Kuan, Meredith D. Betterton, Michael A. D. Goodisman, and Daniel I. Goldman (2022). Frontiers in Physics 10 . DOI: 10.3389/fphy.2022.735667 . Download . Social organisms which construct nests consisting of tunnels and chambers necessarily navigate confined and crowded conditions. Unlike low density collectives like...

CyLaKS thumbnail

Modeling spatiotemporally varying protein–protein interactions in CyLaKS, the Cytoskeleton Lattice-based Kinetic Simulator

Aug. 18, 2021

We describe a new simulation framework for motor protein and crosslinker interaction with microtubules in a lattice model.

Fiorenza et al. 2020 thumbnail

Motor guidance by long-range communication through the microtubule highway

Dec. 24, 2020

We show evidence for micron-scale communication between nanometer-sized motors.

Thumbnail for Lamson et al. 2021

Comparison of explicit and mean-field models of cytoskeletal filaments with crosslinking motors

Nov. 16, 2020

We explore different types of analytic models for crosslinkers and compare them to simulation.

Thumbnail image from Moore et al. 2020

Chiral self-sorting of active semiflexible filaments with intrinsic curvature

May 24, 2020

We present Brownian dynamics simulation results of driven semiflexible filaments with intrinsic curvature and investigate how the interplay between filament rigidity and radius of curvature can tune the self-organization behavior in homochiral systems and heterochiral mixtures.

Thumbnail image from Moore et al. 2020

Collective motion of driven semiflexible filaments tuned by soft repulsion and stiffness

Sept. 25, 2019

We use simulations of driven filaments with tunable soft repulsion and rigidity in order to better understand how the interplay between filament flexibility and steric effects can lead to different active steady states.

Thumbnail image from Maguire 2019 BPJ submission

Bound-state diffusion due to binding to flexible polymers in a selective biofilter

Aug. 25, 2019

We demonstrate that bound mobility via tethered diffusion can be engineered into a synthetic gel using protein fragments derived from the nuclear pore complex.

Thumbnail image form Kuan 2019 BioRxiv posting

Length regulation of microtubule antiparallel overlaps by molecular motors

Aug. 25, 2019

We develop a theory of steady-state overlap length which depends on the filament plus-end motor concentration, determined by a balance between motor arrival and motor departure in the absence of motor-driven sliding.

Thumbnail of the nuclear pore complex from Maguire et al. 2019

Design principles of selective transport through biopolymer barriers

July 30, 2019

We develop a model motivated by features of the nuclear pore complex (NPC) which provides a framework to control binding-induced selective transport in bipolymeric materials.

Thumbnail figure for Edelmaier et al. 2019 Chromosome paper

Mechanisms of chromosome biorientation and bipolar spindle assembly analyzed by computational modeling

June 4, 2019

We develop a computational model of fission-yeast mitosis using a course-grained Brownian Dynamic framework in conjunction with a force-dependent kinetic Monte Carlo algorithm to replicate the biorientation and segregation of chromosomes.