Related papers: Compact Representation of Photosynthesis Dynamics …
The protein folding problem is stated and a list of properties that do not depend upon specific molecules is compiled and analyzed. The relationship of this analysis to future simulations is emphasized. The choice of power and time as…
Interactions between biomolecules, electrons and protons are essential to many fundamental processes sustaining life. It is therefore of interest to build mathematical models of these bioelectrical processes not only to enhance…
A phenomenological theory of luminescence properties of one-dimensional resonant photonic crystals is developed within the framework of classical Maxwell equations with fluctuating polarization terms representing non-coherent sources of…
The phenomenon of protein synthesis has been modeled in terms of totally asymmetric simple exclusion processes (TASEP) since 1968. In this article, we provide a tutorial of the biological and mathematical aspects of this approach. We also…
In this note, we focus on a selection model problem: a mono-exponential model versus a bi-exponential one. This is done in the biological context of living cells, where small data are available. Classical statistics are revisited to improve…
The high-precision differential cross-section data for the reaction $\gamma p \to K^{*+}\Lambda$ are reanalyzed within a Regge-inspired effective Lagrangian approach. The model adopts Regge phenomenology to constrain the $t$-channel…
Leading corrections to Planck's formula and photon thermodynamics arising from the pair-mediated photon-photon interaction are calculated. This interaction is attractive and causes an increase in occupation number for all modes. Possible…
We study kinetic model of Nuclear Receptor Binding to Promoter Regions. This model is written as a system of ordinary differential equations. Model reduction techniques have been used to simplify chemical kinetics.In this case study, the…
This paper describes a method to do ab initio molecular dynamics in electronically excited systems within the random phase approximation (RPA). Using a dynamical variational treatment of the RPA frequency, which corresponds to the…
Currently waste of energy is one of the most important issues, power plants are encountered all over the world. In this study, two mathematical programming models are presented to formulate solar power plants pertinent to the design of a…
The spatially distributed reaction networks are indispensable for the understanding of many important phenomena concerning the development of organisms, coordinated cell behavior, and pattern formation. The purpose of this brief discussion…
BosonSampling is a well-defined scheme for demonstrating quantum supremacy with photons in near term. Although relying only on multi-photon interference in nonadaptive linear-optical networks, it is hard to simulate classically. Here we…
Assume that samples of a filtered version of a function in a shift-invariant space are avalaible. This work deals with the existence of a sampling formula involving these samples and having reconstruction functions with compact support.…
Within the framework of the density matrix method, general formulas obtained that are convenient for describing fast pulsed photoemission that occurs in a time less than or on the order of the times of relaxation processes inside the…
Photophoretic forces, several orders of magnitude stronger than radiation pressure, enable particle trapping at remarkably low optical intensities and have opened pathways to applications in aerosol science, free-space 3D volumetric…
Molecular dynamics simulations of folding in an off-lattice protein model reveal a nucleation scenario, in which a few well-defined contacts are formed with high probability in the transition state ensemble of conformations. Their…
Many mathematical models of synaptic plasticity have been proposed to explain the diversity of plasticity phenomena observed in biological organisms. These models range from simple interpretations of Hebb's postulate, which suggests that…
Photosynthesis is the basic process used by plants to convert light energy in reaction centers into chemical energy. The high efficiency of this process is not yet understood today. Using the formalism for the description of open quantum…
The radiation of photons by electrons is investigated in the framework of quantum electrodynamics up to the second order in the coupling constant $e$. The $N$-particle, coherent, and thermal initial states are considered and the forms of…
Biochemical reactions inside living cells often occur in the presence of crowders -- molecules that do not participate in the reactions but influence the reaction rates through excluded volume effects. However the standard approach to…