Related papers: Actin automata with memory
Single trial analyses of ensemble activity in alert animals demonstrate that cortical circuits dynamics evolve through temporal sequences of metastable states. Metastability has been studied for its potential role in sensory coding, memory…
Cellular actin dynamics result from collective action of hundreds of regulatory proteins, majority of which target actin filaments at their barbed ends. Three key actin binding proteins - profilin, cofilin and twinfilin individually…
Actin growth is a fundamental biophysical process and it is, at the same time, a prototypical example of diffusion-mediated surface growth. We formulate a coupled chemo-mechanical, one-dimensional growth model encompassing both material…
We construct a cellular automaton (CA) model that describes the movement of a particle in a disordered system. The mathematical properties of the CA model were examined by varying the configuration of grid and determining the number of…
The articulation process of dynamical networks is studied with a functional map, a minimal model for the dynamic change of relationships through iteration. The model is a dynamical system of a function $f$, not of variables, having a…
We present a simple and generic theoretical description of actin-based motility, where polymerization of filaments maintains propulsion. The dynamics is driven by polymerization kinetics at the filaments' free ends, crosslinking of the…
Classical cellular automata represent a class of explicit discrete spacetime lattice models in which complex large-scale phenomena emerge from simple deterministic rules. With the goal to uncover different physically distinct classes of…
We review the physical properties of macromolecular networks, consisting of semiflexible polymers such as actin. We start by giving a theoretical analysis of the conformational statistics and mechanical response of single filaments.…
Regulation of contraction in striated muscle is controlled by a dual mechanism involving both thin filaments containing actin and thick filaments containing myosin. The thin filament is activated by calcium ions binding to troponin, leading…
An automata network (AN) is a finite graph where each node holds a state from a finite alphabet and is equipped with a local map defining the evolution of the state of the node depending on its neighbors. They are studied both from the…
Mathematical models of cardiac electrical excitation are increasingly complex, with multiscale models seeking to represent and bridge physiological behaviours across temporal and spatial scales. The increasing complexity of these models…
Experiments suggest that the migration of some cells in the three-dimensional extra cellular matrix bears strong resemblance to one-dimensional cell migration. Motivated by this observation, we construct and study a minimal one-dimensional…
The statelessness of foundation models bottlenecks agentic systems' ability to continually learn, a core capability for long-horizon reasoning and adaptation. To address this limitation, agentic systems commonly incorporate memory modules…
Number-conserving (or {\em conservative}) cellular automata have been used in several contexts, in particular traffic models, where it is natural to think about them as systems of interacting particles. In this article we consider several…
Protein folding is the intricate process by which a linear sequence of amino acids self-assembles into a unique three-dimensional structure. Protein folding kinetics is the study of pathways and time-dependent mechanisms a protein undergoes…
Cell shape changes, essential for processes such as motility or division, are controlled by the actomyosin cortex that actively remodels biological membranes. Their mechanisms can be deciphered in___vitro using biomimetic reconstituted…
Recent work in reinforcement learning has shown that incorporating structural priors for articulated robots, such as link connectivity, into policy networks improves learning efficiency. However, dynamics properties, despite their…
Agent-based models are a powerful tool for studying the behaviour of complex systems that can be described in terms of multiple, interacting ``agents''. However, because of their inherently discrete and often highly non-linear nature, it is…
In a recent paper [arXiv:1506.06649 [nlin.CG]], we presented an example of a 3-state cellular automaton which exhibits behaviour analogous to degenerate hyperbolicity often observed in finite-dimensional dynamical systems. We also…
Cognition is the process of knowing. As carried out by a dynamical system, it is the process by which the system absorbs information into its state. A complex network of agents cognizes knowledge about its environment, internal dynamics and…