Related papers: Microscopic Reversibility or Detailed Balance in I…
The exact dynamics of a Jaynes-Cummings model for a qubit interacting with a continuous distribution of bosons, characterized by a special form of the spectral density, is evaluated analytically. The special reservoir is designed to induce…
A kinetic approach for the evolution of ultracold neutral plasmas including interionic correlations and the treatment of ionization/excitation and recombination/deexcitation by rate equations is described in detail. To assess the…
This is the first report, to our knowledge, on a systematic method for constructing a large scale kinetic metabolic model with incomplete information on kinetic parametersr, and its initial application to the modeling of central metabolism…
Micro-reversibility, that is, the time reversal symmetry exhibited by microscopic dynamics, plays a central role in thermodynamics and statistical mechanics. It is used to prove fundamental results such as Onsager reciprocal relations or…
In this paper we find an analytical solution of the equilibrium ion distribution for a toroidal model of a ionic channel, using the Perfect Screening Theorem (PST). The ions are charged hard spheres, and are treated using a variational Mean…
A natural condition on the structure of the underlying chemical reaction network, namely weak reversibility, is shown to guarantee the existence of an equilibrium (steady state) in each positive stoichiometric compatibility class for the…
Power moments, modified moments, and optimized moments are powerful tools for solving microscopic models of macroscopic systems; however the expansion of the density of states as a continued fraction does not converge to the macroscopic…
For discretisations of hyperbolic conservation laws, mimicking properties of operators or solutions at the continuous (differential equation) level discretely has resulted in several successful methods. While well-posedness for nonlinear…
The general theory of a complex system of nonlinear chemical reactions is a primary language of chemistry that includes chemical engineering and cellular biochemistry. Its significance as an analytical framework, however, has not been fully…
We consider an exactly tractable model of the Kramers type for the voltage-dependent gating dynamics of single ion channels. It is assumed that the gating dynamics is caused by the thermally activated transitions in a bistable potential.…
Mass parameters for collective variables of a dinuclear system and strongly deformed mononucleus are microscopically formulated with the linear response theory making use of the width of single particle states and the…
Machine learning-based compact models provide a rapid and efficient approach for estimating device behavior across multiple input parameter variations. In this study, we introduce two reverse-design algorithms that utilize these compact…
It has recently been shown that structural conditions on the reaction network, rather than a 'fine-tuning' of system parameters, often suffice to impart 'absolute concentration robustness' on a wide class of biologically relevant,…
We study theoretically the bulk modulus (inverse of the compressibility) of a suspension of charged objects (macro-ions), making use of a cell model to account for the finite density of macro-ions. The diffuse layer of charged micro-species…
Correlations driven by the constraints of local charge conservation have been shown to provide insight into the chemical evolution and diffusivity of the high-temperature matter created in ultra-relativistic heavy ion collisions.…
Active matter describes systems whose constituents convert energy from their surroundings into directed motion, such as bacteria or catalytic colloids. We establish a thermodynamic law for dilute suspensions of interacting active particles…
We investigate the effects of the relative dielectric coefficient on ionic flows in open ion channels, using mathematical analysis of reasonably general Poisson-Nernst-Planck type models that can include the finite sizes of ions. The value…
The kinetic equations describing irreversible aggregation and the scaling approach developed to describe them in the limit of large times and large sizes are tersely reviewed. Next, a system is considered in which aggregates can only react…
This paper studies identifiability and convergence behaviors for parameters of multiple types in finite mixtures, and the effects of model fitting with extra mixing components. First, we present a general theory for strong identifiability,…
In Bhattacharya et al. (Science Advances, 2020), a set of chemical reactions involved in the dynamics of actin waves in cells was studied. Both at the microscopic level, where the individual chemical reactions are directly modelled using…