Related papers: A phase transition in energy-filtered RNA secondar…
Major efforts in recent years have been directed towards understanding molecular transport in polymeric membranes, in particular reverse osmosis and nanofiltration membranes. Transition-state theory is an increasingly common approach to…
We consider the continuous time version of the Random Walk Pinning Model (RWPM), studied in [5,6,7]. Given a fixed realization of a random walk Y$ on Z^d with jump rate rho (that plays the role of the random medium), we modify the law of a…
In the field of signal processing, phase transition phenomena have recently attracted great attention. Donoho's work established the signal recovery threshold using indicators such as restricted isotropy (RIP) and incoherence and proved…
We investigate the scattering of a wave packet describing low-energy electrons in graphene by a time-dependent finite step potential barrier. Our results demonstrate that, after Klein tunneling through the barrier, the electron acquires an…
The center-bound excitonic diffusion on dendrimers subjected to several types of non-homogeneous funneling potentials, is considered. We first study the mean-first passage time (MFPT) for diffusion in a linear potential with different types…
Branching can be observed at the austenite-martensite interface of martensitic phase transformations. For a model problem, Kohn and M\"uller studied a branching pattern with optimal scaling of the energy with respect to its parameters.…
The branching of an RNA molecule is an important structural characteristic yet difficult to predict correctly, especially for longer sequences. Using plane trees as a combinatorial model for RNA folding, we consider the thermodynamic cost,…
Changing the microstructure properties of a space-time metamaterial while a wave is propagating through it, in general requires addition or removal of energy, which can be of exponential form depending on the type of modulation. This limits…
Properties of the free energy landscape in phase space of a dense hard sphere system characterized by a discretized free energy functional of the Ramakrishnan-Yussouff form are investigated numerically. A considerable number of glassy local…
We discuss the physics of RNA as described by its secondary structure. We examine the static properties of a homogeneous RNA-model that includes pairing and base stacking energies as well as entropic costs for internal loops. For large…
Numerical simulations of a thin layer of turbulent flow in stably stratified conditions within the Boussinesq approximation have been performed. The statistics of energy transfer among scales have been investigated for different values of…
Rearranging the six-dimensional phase space of particles in plasma can release energy. The rearrangement may happen through the application of electric and magnetic fields, subject to various constraints. The maximum energy that can be…
Structural degeneracies underpin the ferroic behavior of next-generation two-dimensional materials, and lead to peculiar two-dimensional structural transformations under external fields, charge doping and/or temperature. The most direct…
Biomolecular conformational transitions are usually modeled as barrier crossings in a free energy landscape. The transition paths connect two local free energy minima and transition path times (TPT) are the actual durations of the crossing…
Plasma turbulence at scales of the order of the ion inertial length is mediated by several mechanisms, including linear wave damping, magnetic reconnection, formation and dissipation of thin current sheets, stochastic heating. It is now…
Simulated nucleotide sequences are widely used in theoretical and empirical molecular evolution studies. Conventional simulators generally use fixed parameter time-homogeneous Markov model for sequence evolution. In this work, we use the…
The structural properties of the ROFeM (R=La, Nd; M=As, P) materials have been analyzed by means of electron diffraction, high-resolution transmission-electron microscopy (TEM) and in-situ cooling TEM observations. The experimental results…
Based on the mean first passage time (MFPT) theory, we derive the expression of the MFPT in the energy-diffusion controlled regime with a power-law distribution. We discuss the finite barrier effect (i.e. thermal energy is not small with…
We study the effects of random fluctuations on quantum phase transitions by the energy gap analysis. For the infinite-ranged spin-glass models with a transverse field, we find that a strong sample-to-sample fluctuation effect leads to broad…
We employ simulations of model proteins to study folding on rugged energy landscapes. We construct ``first-passage'' networks as the system transitions from unfolded to native states. The nodes and bonds in these networks correspond to…