Computational models for active matter

MR Shaebani, A Wysocki, RG Winkler… - Nature Reviews …, 2020 - nature.com
Active matter, which ranges from molecular motors to groups of animals, exists at different
length scales and timescales, and various computational models have been proposed to …

The model of local axon homeostasis-explaining the role and regulation of microtubule bundles in axon maintenance and pathology

I Hahn, A Voelzmann, YT Liew, B Costa-Gomes… - Neural …, 2019 - Springer
Axons are the slender, cable-like, up to meter-long projections of neurons that electrically
wire our brains and bodies. In spite of their challenging morphology, they usually need to be …

How neurons maintain their axons long-term: an integrated view of axon biology and pathology

G Smith, ST Sweeney, CJ O'Kane… - Frontiers in Neuroscience, 2023 - frontiersin.org
Axons are processes of neurons, up to a metre long, that form the essential biological cables
wiring nervous systems. They must survive, often far away from their cell bodies and up to a …

Heterogeneities shape passive intracellular transport

P Witzel, M Götz, Y Lanoiselée, T Franosch… - Biophysical journal, 2019 - cell.com
A living cell's interior is one of the most complex and intrinsically dynamic systems, providing
an elaborate interplay between cytosolic crowding and ATP-driven motion that controls …

Autoregulation and repair in microtubule homeostasis

I Gasic, TJ Mitchison - Current opinion in cell biology, 2019 - Elsevier
Even in the face of damaging insults, most cells maintain stability over time through multiple
homeostatic pathways, including maintenance of the microtubule cytoskeleton that is …

Diversity and potential multifunctionality of archaeal CetZ tubulin-like cytoskeletal proteins

HJ Brown, IG Duggin - Biomolecules, 2023 - mdpi.com
Tubulin superfamily (TSF) proteins are widespread, and are known for their multifaceted
roles as cytoskeletal proteins underpinning many basic cellular functions, including …

Hydrodynamic synchronization and clustering in ratcheting colloidal matter

SG Leyva, RL Stoop, I Pagonabarraga, P Tierno - Science Advances, 2022 - science.org
Ratchet transport systems are widespread in physics and biology; however, the effect of the
dispersing medium in the collective dynamics of these out-of-equilibrium systems has been …

Brownian asymmetric simple exclusion process

D Lips, A Ryabov, P Maass - Physical Review Letters, 2018 - APS
We study the driven Brownian motion of hard rods in a one-dimensional cosine potential
with a large amplitude compared to the thermal energy. In a closed system, we find …

Collective excitations in jammed states: ultrafast defect propagation and finite-size scaling

AP Antonov, D Voráč, A Ryabov… - New Journal of …, 2022 - iopscience.iop.org
In crowded systems, particle currents can be mediated by propagating collective excitations
which are generated as rare events, are localized, and have a finite lifetime. The theoretical …

Interplay of reservoirs in a bidirectional system

A Gupta, B Pal, AK Gupta - Physical Review E, 2023 - APS
Motivated by the interplay of multiple species in several real world transport processes, we
propose a bidirectional totally asymmetric simple exclusion process with two finite particle …