Related papers: Can we make biochemistry an exact science?
Active particles contain internal degrees of freedom with the ability to take in and dissipate energy and, in the process, execute systematic movement. Examples include all living organisms and their motile constituents such as molecular…
The no-pumping theorem states that seemingly natural driving cycles of stochastic machines fail to generate directed motion. Initially derived for single particle systems, the no-pumping theorem was recently extended to many-particle…
We consider an interaction of charged bodies under the following simplified conditions: the distribution of charge over each body is stable; the interaction of bodies is governed by electrical forces only. Physically, these assumptions can…
Reaction systems are discrete dynamical systems inspired by bio-chemical processes, whose dynamical behaviour is expressed by set-theoretic operations on finite sets. Reaction systems thus provide a description of bio-chemical phenomena…
Significant progress in the development of efficient and fast algorithms for quantum chemical calculations has been made in the past two decades. The main focus has always been the desire to be able to treat ever larger molecules or…
Attosecond chemistry involves developing strategies to manipulate electronic coherent waves in molecules, which can influence the outcome of photoinduced reactions. While recent progress in this field calls for investigations of…
In this mini-review I look into the physics underlying the theory of electronic structure of atoms and molecules. Quantum mechanics is needed to understand the structure of the periodic table. Special relativity is indispensable for a…
Molecular dynamics (MD) simulations are used in biochemistry, physics, and other fields to study the motions, thermodynamic properties, and the interactions between molecules. Computational limitations and the complexity of these problems,…
In previous work we developed a new statistical method for calculating the individual activities of ions including the association of ions. Here we study multi-particle electrostatic interactions connected within higher cluster integrals…
The Maxwell-Lorentz theory of electrodynamics cannot readily be applied to a system of point charges: the electromagnetic field is not well-defined at the position of a point charge, an energy conservation argument is not obvious, an…
We consider viscous, heat conducting mixtures of molecularly miscible chemical species forming a fluid in which the constituents can undergo chemical reactions. Assuming a common temperature for all components, we derive a closed system of…
Scaling laws illuminate Nature's fundamental biological principles and guide bioinspired materials and structural designs. In simple cases they are based on the fundamental principle that all laws of nature remain unchanged (i.e.,…
A gap in understanding the link between continuum theories of ion transport in ionic liquids and the underlying microscopic dynamics has hindered the development of frameworks for transport phenomena in these concentrated electrolytes.…
An "exact" method for scalar one-dimensional hyperbolic conservation laws is presented. The approach is based on the evolution of shock particles, separated by local similarity solutions. The numerical solution is defined everywhere, and is…
The law of action-reaction is thoroughly used in textbooks to derive the conservation laws of linear and angular momentum, and it was considered by Ernst Mach the the cornerstone of physics. We give here a background survey of several…
Modified versions of the Schr\"{o}dinger equation have been proposed in order to incorporate the description of measurement processes into the mathematical structure of quantum theory. Typically, these proposals introduce new physical…
The Cartesian material space approach to Maxwell's equations reveals the analytical solution of the continuous radial density for the extended elementary charge. Radial charges and their Coulomb fields carry equal passive and active…
The theory of real relativistic fluids is in the rather unique situation that there is a natural relativistic extension of the nonrelativistic theory, but it is physically untenable. On the other hand, mounting evidence that matter created…
The Divergence Theorem as usually stated cannot be applied across a change of signature unless it is re-expressed to allow for a finite source term on the signature change surface. Consequently all conservation laws must also be `modified',…
Bioelectrochemical systems are electrochemical cells that rely on conductive biofilms covering an electrode. We consider the example of a microbial fuel cell, and we derive a dynamic model of ion transport, biochemical reactions and…