Related papers: Randomly cross-linked polymer models
We represent a theory of polymer gelation as an analogue of liquid-glass transition in which elastic fields of stress and strain shear components appear spontaneously as a consequence of the cross-linking of macromolecules. This…
Random unimodular lattice triangulations have been recently used as an embedded random graph model, which exhibit a crossover behaviour between an ordered, large-world and a disordered, small-world behaviour. Using the ergodic Pachner flips…
I develop a kinetic mechanism to explain chain folding in polymer crystallization which is based on the competition between the formation of stems, which is due to frequent occupations of trans states along the chains in the supercooled…
We present a statistical mechanics approach to the protein folding problem. We first review some of the basic properties of proteins, and introduce some physical models to describe their thermodynamics. These models rely on a random…
The self-avoid random walk algorithm has been extensively used in the study of polymers. In this work we study the basic properties of the trajectories generated with this algorithm when two interactions are added to it: contact and folding…
A model for a monolayer of two types of particles spontaneously forming ordered patterns is studied by a mesoscopic theory and by MC simulations. We assume hard-cores of the same size for both components, short-range attraction long-range…
We have developed a theory of polymer entanglement using an extended Cahn-Hilliard functional, with two extra terms. One is a nonlocal attractive term, operating over mesoscales, which is interpreted as giving rise to entanglement, and the…
These lecture notes are a guided tour through the fascinating world of polymer chains interacting with themselves and/or with their environment. The focus is on the mathematical description of a number of physical and chemical phenomena,…
We study the dynamics of a polymer when it is quenched from a $\theta$ solvent into a good or bad solvent by means of a Langevin equation. The variation of the radius of gyration is studied as a function of time. For the first stage of…
When nodes in a mobile network cluster together or move according to common external factors (e.g., cars that follow the road network), the resulting contact patterns become correlated. In this work we address the question of modelling such…
We report the existence of a chimera state in an assembly of identical nonlinear oscillators that are globally linked to each other in a simple planar cross-coupled form. The rotational symmetry breaking of the coupling term appears to be…
We consider a statistical mechanics model for biopolymers. Sophisticated polymer chains, such as DNA, have stiffness when they stretch chains. The Laplacian interaction is used to describe the stiffness. Also, the surface between two media…
Using the theory of elasticity of polymer gels we show that large-scale cross-link density patterns written into the structure of the network in the melt state, can be revealed upon swelling by monitoring the monomer density patterns. We…
The correlation of gaps in dimer systems was introduced in 1963 by Fisher and Stephenson, who looked at the interaction of two monomers generated by the rigid exclusion of dimers on the closely packed square lattice. In previous work we…
In-vivo DNA organization at large length scales ($\sim 100nm$) is highly debated and polymer models have proved useful to understand the principle of DNA-organization. Here, we show that $<2$% cross-links at specific points in a ring…
We study the dynamics of a single chain polymer confined to a two dimensional cell. We introduce a kinetically constrained lattice gas model that preserves the connectivity of the chain, and we use this kinetically constrained model to…
There are many proteins or protein complexes which have multiple DNA binding domains. This allows them to bind to multiple points on a DNA molecule (or chromatin fibre) at the same time. There are also many proteins which have been found to…
Polymer models describing the statistics of biomolecules under confinement have applications to a wide range of single molecule experimental techniques and give insight into biologically relevant processes {\em{in vivo}}. In this paper, we…
We present Monte Carlo computer simulations for melts of semiflexible randomly knotted and randomly concatenated ring polymers on the fcc lattice and in slit confinement. Through systematic variation of the slit width at fixed melt density,…
We consider a biopolymer bundle consisting of filaments that are crosslinked together. The crosslinks are reversible: they can dynamically bind and unbind adjacent filament pairs as controlled by a binding enthalpy. The bundle is subjected…