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The framework of bipartite stochastic thermodynamics is a powerful tool to analyze a composite system's internal thermodynamics. It has been used to study the components of different molecular machines such as ATP synthase. However, this…
In computational neuroscience, it is common to use the simplifying assumption that diffusive currents are negligible compared to Ohmic currents. However, endured periods of intense neural signaling may cause local ion concentration changes…
Learning is based on synaptic plasticity, which affects and is driven by neural activity. Because pre- and postsynaptic spiking activity is shaped by randomness, the synaptic weights follow a stochastic process, requiring a probabilistic…
In this paper, we are interested in the dynamics of charged particles interacting with the incompressible viscous flow. More precisely, we consider the Vlasov-Poisson or Vlasov-Poisson-Fokker-Planck equation coupled with the incompressible…
We discuss various models of ion transport through cell membrane channels. Recent experimental data shows that sizes of ion channels are compared to those of ions and that only few ions may be simultaneously in any single channel.…
We present new results on the ionization by electron impacts in a dense plasma. We are interested in the density effect known as the ionization potential depression and in its role in atomic structure. Rather than using the well-known…
Fluidic iontronics is emerging as a distinctive platform for implementing neuromorphic circuits, characterized by its reliance on the same aqueous medium and ionic signal carriers as the brain. Drawing upon recent theoretical advancements…
High-dimensional compartmental dynamical systems have been introduced to model brain metabolism. In this article, an approach is proposed to their mathematical analysis. Reductions of these models are obtained by replacing several…
Cross-field neoclassical transport of heat, particles and momentum is studied in sharp density pedestals, with a focus on isotope and profile effects, using a radially global approach. Global effects -- which tend to reduce the peak ion…
Partitioning and transport of water and small solutes into and through nanopores is important to a variety of chemical and biological processes and applications. Here we study the partitioning of positive ions of increasing size into the…
For tracing the spatiotemporal evolution of electronic systems, we suggest and analyze theoretically a setup that exploits the excellent spatial resolution based on scanning tunneling microscopy techniques combined with the temporal…
We study some of the effects that magnetic turbulent fluctuations have on the dynamics of pickup O+ ions in the magnetic polar regions of the Mars ionosheath. In particular we study their effect on the bulk velocity profiles of ions as a…
The Poisson-Nernst-Planck system of equations used to model ionic transport is interpreted as a gradient flow for the Wasserstein distance and a free energy in the space of probability measures with finite second moment. A variational…
Flow instabilities play important roles in a wide range of engineering, geophysical, and astrophysical flows, ranging from supernova explosion in crab nebula, formation of clouds in sky, waves on ocean, to inertial confinement fusion…
In this paper we present a simple microscopic stochastic model describing short term plasticity within a large homogeneous network of interacting neurons. Each neuron is represented by its membrane potential and by the residual calcium…
Virtually all cells use energy and ion-specific membrane pumps to maintain large transmembrane gradients of Na$^+$, K$^+$, Cl$^-$, Mg$^{++}$, and Ca$^{++}$. Although they consume up to 1/3 of a cell's energy budget, the corresponding…
We introduce a model for ionic electrodiffusion and osmotic water flow through cells and tissues. The model consists of a system of partial differential equations for ionic concentration and fluid flow with interface conditions at deforming…
We investigate calcium signaling feedback through calcium-activated potassium channels of a dendritic spine by applying the immersed boundary method with electrodiffusion. We simulate the stochastic gating of such ion channels and the…
In the study of gas dynamics, theoretical modeling and numerical simulation are mostly set up with deterministic settings. Given the coarse-grained modeling in theories of fluids, considerable uncertainties may exist between flow-field…
We consider the problem of electromigration of a sample ion (analyte) within a uniform background electrolyte when the confining channel undergoes a sudden contraction. One example of such a situation arises in microfluidics in the…