Related papers: Allosteric Regulation by a Critical Membrane
The second-order phase transitions in the Ising model and liquid-gas systems share a universality class and critical exponents, despite the absence of $Z_2$ symmetry in the liquid-gas Hamiltonian. This discrepancy highlights a central…
The mechanical properties of cells, which influence the properties of the tissue they belong to, are controlled by various mechanisms. Bi et al. theoretically demonstrated that density-independent rigidity transition occurs in…
Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by proteins. This interaction works both ways: while proteins…
Allosteric regulation is often viewed as thermodynamic in nature. However protein internal motions during an enzymatic reaction cycle can be slow hopping processes over numerous potential barriers. We propose that regulating molecules may…
We show that lateral fluidity in membranes containing quenched protein obstacles belongs to the universality class of the two-dimensional random-field Ising model. The main feature of this class is the absence of a phase transition: there…
Biological membranes constitute boundaries of cells and cell organelles. Physico-chemical mechanisms at the atomic scale are dictated by protein-lipid interaction strength, lipid composition, lipid distribution in the vicinity of the…
A unified algebraic structure is shown to exist among various equations for the critical temperatures pertaining to diverse two- and three-dimensional lattices. This isomorphism is a pointer to the straight-forward extension of…
Learning with an artificial neural network encodes the system behavior in a feed-forward function with a number of parameters optimized by data-driven training. An open question is whether one can minimize the network complexity without…
Using computer simulations of an atomistic glass-forming liquid, we investigate the fluctuations of the overlap between a fluid configuration and a quenched reference system. We find that large fluctuations of the overlap develop as…
Lipid membranes are abundant in living organisms, where they constitute a surrounding shell for cells and their organelles. There are many circumstances in which the deformations of lipid membranes are involved in living cells: fusion and…
Understanding the link between structure and function in proteins is fundamental in molecular biology and proteomics. A central question in this context is whether allostery - where the binding of a molecule at one site affects the activity…
We describe a numerical method for simulating stochastic fluid dynamics near a critical point in the Ising universality class. This theory is known as model H, and is expected to govern the non-equilibrium dynamics of Quantum Chromodynamics…
We investigate the collective behavior of an Ising lattice gas, driven to non-equilibrium steady states by being coupled to {\em two} thermal baths. Monte Carlo methods are applied to a two-dimensional system in which one of the baths is…
The interpretation electrical phenomena in biomembranes is usually based on the assumption that the experimentally found discrete ion conduction events are due to a particular class of proteins called ion channels while the lipid membrane…
During the lifecycle of a virus, viral proteins and other components self-assemble to form a symmetric protein shell called a capsid. This assembly process is subject to multiple competing constraints, including the need to form a…
We approximate a 2D Ising spin glass by tiling an infinite square lattice with large identical unit cells. The interactions within the unit cell are random. Each such sample shows one or more critical points. We examine the scaling of the…
In this paper we analyze metastability and nucleation in the context of the Kawasaki dynamics for the two-dimensional Ising lattice gas at very low temperature. Let $\Lambda\subset\mathbb{Z}^2$ be a finite box. Particles perform simple…
Universality classes of Ising-like phase transitions are investigated in series of two-dimensional synchronously updated probabilistic cellular automata (PCAs), whose time evolution rules are either of Glauber type or of majority-vote type,…
The thermodynamic, dynamic and structural behavior of a water-like system confined in a matrix is analyzed for increasing confining geometries. The liquid is modeled by a two dimensional associating lattice gas model that exhibits density…
Binding and unbinding of ligands to specific sites of a macromolecule are one of the most elementary molecular interactions inside the cell that embody the computational processes of biological regulations. The interaction between…