Related papers: Generalized Poland-Scheraga denaturation model and…
The asymptotic behavior of the solution of an infinite set of Smoluchowski's discrete coagulation-fragmentation-diffusion equations with non-homogeneous Neumann boundary conditions, defined in a periodically perforated domain, is analyzed.…
Advanced phase-field techniques have been applied to address various aspects of polycrystalline solidification including different modes of crystal nucleation. The height of the nucleation barrier has been determined by solving the…
We study the defocusing energy-critical inhomogeneous nonlinear Schr\"odinger equation \[ i\partial_tu+\Delta u=|x|^{-b}|u|^{\frac{4-2b}{d-2}}u, \qquad (t,x)\in\R\times\R^d, \] with initial data $u_0\in\dot H_x^1(\R^d)$, where $d\ge 3$ and…
Pinning models are built from discrete renewal sequences by rewarding (or penalizing) the trajectories according to their number of renewal epochs up to time $N$, and $N$ is then sent to infinity. They are statistical mechanics models to…
In models of phase coexistence, the precise form of the double-well potential is of central importance, yet it cannot be derived from first principles. In this paper, we investigate an inverse problem: starting from a prescribed transition…
The basic models of helix-coil transitions in biomolecules are introduced. These include phenomenological, zipper (Bragg-Zimm) models of polypeptides, loop-entropy (Poland-Scheraga) and Hamiltonian (Peyrard-Bishop) models of homogeneous DNA…
We introduce a coarse-grained model of DNA with bases modeled as rigid-body ellipsoids to capture their anisotropic stereochemistry. Interaction potentials are all physicochemical and generated from all-atom simulation/parameterization with…
To model the dynamics of polymers formed through nucleation, elongated by polymerisation, shortened by depolymerisation and subject to aggregation reactions, we study a nonlinear integro-differential equation. Growth and shrinkage are…
The notion of hereditarily equivalent continua is classical in continuum theory with only two known nondegenerate examples (arc, and pseudoarc). In this paper we introduce generically hereditarily equivalent continua, i.e. continua which…
The nature of the interplay between fluctuations and quenched random disorder is a long-standing open problem, particularly in systems with a continuous order parameter. This lack of a full theoretical treatment has been underscored by…
We rigorously derive a homogenized model for the Poisson--Nernst--Planck (PNP) equations for the case of multiple species defined on a periodic porous medium in spatial dimensions two and three. This extends the previous homogenization…
Recently Garel, Monthus and Orland (Europhys. Lett. v 55, 132 (2001)) considered a model of DNA denaturation in which excluded volume effects within each strand are neglected, while mutual avoidance is included. Using an approximate scheme…
We present a new numerical approach that is able to solve the multi-dimensional radiative transfer equations in all opacity regimes on a Lagrangian, unstructured network of characteristics based on a stochastic point process. Our method…
We propose a model for the photo-deactivation mechanism for DNA based upon accurate quantum chemical and molecular dynamical evaluations of model Watson/Crick nucleoside pairs and stacked pairs. Our results corroborate recent ultrafast…
Problems with sign-changing coefficients occur, for instance, in the study of transmission problems with metamaterials. In this work, we present and analyze a generalized finite element method in the spirit of the Localized Orthogonal…
In this work, we analytically investigate a degenerating PDE system for phase separation and complete damage processes considered on a nonsmooth time-dependent domain with mixed boundary conditions. The evolution of the system is described…
A recently proposed model for steady-state spectra of polar-polarizable chromophores is extended to describe time-resolved spectra. The model, based on a two-state picture for the solute and on a continuum overdamped description for the…
Array comparative genomic hybridization(CGH) is a high resolution technique to assess DNA copy number variation. Identifying breakpoints where copy number changes will enhance the understanding of the pathogenesis of human diseases, such as…
The classical polynomial interpolation problem in several variables can be generalized to the case of points with greater multiplicities. What is known, as yet, is essentially concentrated in the Alexander-Hirschowitz Theorem which says…
The notion of periodic two-scale convergence and the method of periodic unfolding are prominent and useful tools in multiscale modeling and analysis of PDEs with rapidly oscillating periodic coefficients. In this paper we are interested in…