Related papers: Comment on "Spin-1 aggregation model in one dimens…
The self-assembly of particles into organized structures is a key feature of living organisms and a major engineering challenge. While it may proceed through the binding of perfectly matched, puzzle-pieces-like particles, many other…
Spherical symmetry is ubiquitous in nature. It's therefore unfortunate that spherical system simulations are so hard, and require complete spheres with millions of interacting particles. Here we introduce an approach to model spherical…
In this work a symmetry of universal finite-size scaling functions under a certain anisotropic scale transformation is postulated. This transformation connects the properties of a finite two-dimensional system at criticality with…
We investigate various versions of multi-dimensional systems involving many species, modeling aggregation phenomena through nonlocal interaction terms. We establish a rigorous connection between kinetic and macroscopic descriptions by…
In the self-assembly process which drives the formation of cellular membranes, micelles, and capsids, a collection of separated subunits spontaneously binds together to form functional and more ordered structures. In this work, we study the…
We study scaling properties of stochastic aggregation processes in one dimension. Numerical simulations for both diffusive and ballistic transport show that the mass distribution is characterized by two independent nontrivial exponents…
Protein assembly plays an important role throughout all phyla of life, both physiologically and pathologically. In particular, aggregation and polymerization of proteins are key-strategies that regulate cellular function. In recent years,…
We prove a Pumping Lemma for the noncooperative abstract Tile Assembly Model, a model central to the theory of algorithmic self-assembly since the beginning of the field. This theory suggests, and our result proves, that small differences…
We describe some field theoretic methods for studying quantum spin systems in one dimension. These include the nonlinear sigma-model approach which is particularly useful for large values of the spin, the idea of Luttinger liquids and…
The microscopic approach to the description of the phase behaviour and critical phenomena in binary fluid mixtures is proposed. It is based on the method of collective variables with a reference system. The physical nature of the order…
We present two approaches, one homological and the other simplicial, for the investigation of dimension quotients of groups. The theory is illustrated, in particular, with a conceptual discussion of the fourth and fifth dimension quotients.
This paper presents an extension and an elaboration of the theory of differential similarity, which was originally proposed in arXiv:1401.2411 [cs.LG]. The goal is to develop an algorithm for clustering and coding that combines a geometric…
We have developed a global analysis model for randomly oriented, fully hydrated inverted hexagonal (H$_\text{II}$) phases formed by many amphiphiles in aqueous solution, including membrane lipids. The model is based on a structure factor…
An extremely broad and important class of phenomena in nature involves the settling and aggregation of matter under gravitation in fluid systems. Some examples include: sedimenting marine snow particles in lakes and oceans (central to…
We construct supersymmetric conformal sigma models in three dimensions. Nonlinear sigma models in three dimensions are nonrenormalizable in perturbation theory. We use the Wilsonian renormalization group equation method, which is one of the…
This review article discusses some common enhanced sampling methods in relation to the process of self-assembly of biomolecules. An introduction to self-assembly and its challenges is covered followed by a brief overview of the methods and…
A fully adaptive methodology is developed for reducing the complexity of large dissipative systems. This represents a significant step towards extracting essential physical knowledge from complex systems, by addressing the challenging…
We present a model for the efficient simulation of generic bilayer membranes. Individual lipids are represented by one head- and two tail-beads. By means of simple pair potentials these robustly self-assemble to a fluid bilayer state over a…
The use of adaptive spatial resolution to simulate flows of practical interest using Smoothed Particle Hydrodynamics (SPH) is of considerable importance. Recently, Muta and Ramachandran [1] have proposed an efficient adaptive SPH method…
Rejoinder to ``Microarrays, Empirical Bayes and the Two-Groups Model'' [arXiv:0808.0572]