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Chromosomes are crumpled polymer chains further folded into a sequence of stochastic loops via loop extrusion. While extrusion has been verified experimentally, the particular means by which the extruding complexes bind DNA polymer remains…

Soft Condensed Matter · Physics 2023-06-14 Kirill Polovnikov , Bogdan Slavov

We solve a supersymmetric matrix model with a general potential. While matrix models usually describe surfaces, supersymmetry enforces a cancellation of bosonic and fermionic loops and only diagrams corresponding to so-called branched…

Condensed Matter · Physics 2009-10-28 J. Ambjorn , Y. Makeenko , K. Zarembo

One of the most challenging problems in polymer physics is providing a theoretical description for the behaviour of rings in dense solutions and melts. Although it is nowadays well established that the overall size of a ring in these…

Soft Condensed Matter · Physics 2016-10-25 Davide Michieletto

In this work we focus on the dynamics of macromolecular networks formed by end-linking identical polymer stars. The resulting macromolecular network can then be viewed as consisting of spacers which connect branching points (the cores of…

Soft Condensed Matter · Physics 2016-08-31 Cristian Satmarel , Christian von Ferber , Alexander Blumen

We analyze conformational properties of branched polymer structures, formed on the base of Erd\"os-R\'enyi random graph model. We consider networks with $N=5$ vertices and variable parameter $c$, that controls graph connectedness. The…

Disordered Systems and Neural Networks · Physics 2020-06-24 V. Blavatska , K. Haydukivska , Yu. Holovatch

Collapse of the polymer chain upon the sharp decrease of solvent quality is studied. During collapse, any pair of polymer units appearing in a sufficiently close vicinity in space has the possibility with a certain probability to form an…

Soft Condensed Matter · Physics 2019-11-07 A. M. Astakhov , S. K. Nechaev , K. E. Polovnikov

The paper presents a short overview of the theoretical, numerical and experimental works on the critical behavior of a dilute polymer solution of long-flexible polymer chains confined in semi-infinite space restricted by a surface or in a…

Soft Condensed Matter · Physics 2018-01-08 Zoryana Usatenko , Krzysztof S. Danel

Topologically constrained genome-like polymers often double-fold into tree-like configurations, which can be modelled on the level of folded (ring) polymers or on the level of the underlying random trees. For both descriptions, we have…

Soft Condensed Matter · Physics 2026-05-19 Pieter H. W. van der Hoek , Angelo Rosa , Elham Ghobadpour , Ralf Everaers

We study the conformation and topological properties of cyclical star polymers with $f$ ring arms, each made of $n$ beads. We find that the conformational properties of unlinked cyclical star polymers are compatible to those of linear star…

Soft Condensed Matter · Physics 2024-09-04 Davide Breoni , Emanuele Locatelli , Luca Tubiana

Conformation-dependent design of polymer sequences can be considered as a tool to control macromolecular self-assembly. We consider the monomer unit sequences created via the modification of polymers in a homogeneous melt in accordance with…

Soft Condensed Matter · Physics 2021-07-07 Elena N. Govorun , Ruslan M. Shupanov , Sophia A. Pavlenko , Alexei R. Khokhlov

Circuit topology refers to the arrangement of interactions between objects belonging to a linearly ordered object set. Linearly ordered set of objects are common in nature and occur in a wide range of applications in economics, computer…

Disordered Systems and Neural Networks · Physics 2015-09-02 Alireza Mashaghi , Abolfazl Ramezanpour

Monte Carlo simulations of coarse-grained polymers provide a useful tool to deepen the understanding of conformational and statistical properties of polymers both in physical as well as in biological systems. In this study we sample compact…

Soft Condensed Matter · Physics 2009-05-07 Manfred Bohn , Dieter W. Heermann

A coarse-grained model to describe the lateral structure of a one-component polymer brush is presented. In this model, a single polymer chain is described by just two coordinates, namely the position of the grafted monomer, and the monomer…

Soft Condensed Matter · Physics 2014-02-19 Richard L. C. Vink

Linear polymers are represented as chains of hopping reptons and their motion is described as a stochastic process on a lattice. This admittedly crude approximation still catches essential physics of polymer motion, i.e. the universal…

Statistical Mechanics · Physics 2015-05-18 J. M. J. van Leeuwen , Andrzej Drzewinski

We study the conformational properties of heteropolymers containing two types of monomers A and B, modeled as self-avoiding random walks on a regular lattice. Such a model can describe in particular the sequences of hydrophobic and…

Disordered Systems and Neural Networks · Physics 2014-09-01 Viktoria Blavatska , Wolfhard Janke

The packing geometry of macromolecules in complex mesophases is of key importance to self-organization in synthetic and biological soft materials. While approximate or heuristic models rely on often-untested assumptions about how flexible…

Soft Condensed Matter · Physics 2023-10-05 Benjamin R. Greenvall , Michael S. Dimitriyev , Gregory M. Grason

The interplay of topological constraints, excluded volume interactions, persistence length and dynamical entanglement length in solutions and melts of linear chains and ring polymers is investigated by means of kinetic Monte Carlo…

Statistical Mechanics · Physics 2009-10-31 M. Mueller , J. P. Wittmer , J. -L. Barrat

Topological entanglements in polymers are mimicked by sliding rings (slip-links) which enforce pair contacts between monomers. We study the force-extension curve for linear polymers in which slip-links create additional loops of variable…

Statistical Mechanics · Physics 2009-11-07 Ralf Metzler , Yacov Kantor , Mehran Kardar

This article introduces a finite piecewise Euclidean cell complex homeomorphic to the space of monic centered complex polynomials of degree $d$ whose critical values lie in a fixed closed rectangular region. We call this the branched…

Geometric Topology · Mathematics 2024-10-07 Michael Dougherty , Jon McCammond

The conformations of interacting linear polymers on a dynamical planar random lattice are studied using a random two-matrix model. An exact expression for the partition function of self-avoiding chains subject to attractive contact…

Condensed Matter · Physics 2008-02-03 Simon Dalley