Related papers: An allosteric model of KaiC phosphorylation
In this study, we consider chromospheric heating models for 55 Cancri in conjunction with observations. The theoretical models, previously discussed in Paper I, are self-consistent, nonlinear and time-dependent ab-initio computations…
In a recent paper, J. Chem. Phys. 162, 214101 (2025), a novel approach for the rigidification of a molecular cluster was proposed, in which starting with an all-atom (AA) potential, a coarse-grained (CG) potential for the associated cluster…
Embedding efficient calculation instructions into biochemical system has always been a research focus in synthetic biology. One of the key problems is how to sequence the chemical reaction modules that act as units of computation and make…
We formulate a mathematical model for daily activities of a cow (eating, lying down, and standing) in terms of a piecewise affine dynamical system. We analyze the properties of this bovine dynamical system representing the single animal and…
In this work, we study the quantum dynamics of a photoisomerization reaction employing a two-electronic-state three-vibrational-mode model of the 2-cis-penta-2,4-dieniminium cation (cis-PSB3). In particular, we address two main issues: the…
Single ion optical clocks have shown systematic frequency uncertainties below $10^{-18}$, but typically require more than one week of averaging to achieve a corresponding statistical uncertainty. This time can be reduced with longer probe…
A major open question in the study of synchronization of coupled oscillators is to find necessary and sufficient condition for a system to synchronize on a given family of graphs. This is a difficult question that requires to understand…
A model of two self-sustained oscillators interacting through memristive coupling is studied. Memristive coupling is realized by using a cubic memristor model. Numerical simulation is combined with theoretical analysis by means of…
With the goal of building a model of the HVC nucleus in the avian song system, we discuss in detail a model of HVC$_{\text{RA}}$ projection neurons comprised of a somatic compartment with fast Na$^+$ and K$^+$ currents and a dendritic…
We present a formulation of measurement-based feedback control of a single quantum particle in one spatial dimension. An arbitrary linear combination of the position and momentum of the particle is continuously monitored, and feedback…
Phase estimation is known to be a robust method for single-qubit gate calibration in quantum computers, while Bayesian estimation is widely used in devising optimal methods for learning in quantum systems. We present Bayesian phase…
Given a critical quantum spin chain with a microscopic Lie-group symmetry, corresponding e.g. to $U(1)$ or $SU(2)$ spin isotropy, we numerically investigate the emergence of Kac-Moody symmetry at low energies and long distances. In that…
The success of adiabatic quantum computation (AQC) depends crucially on the ability to maintain the quantum computer in the ground state of the evolution Hamiltonian. The computation process has to be sufficiently slow as restricted by the…
The circadian clock is an internal timer that coordinates the daily rhythms of behavior and physiology, including sleep and hormone secretion. Accurately tracking the state of the circadian clock, or circadian phase, holds immense potential…
We introduce a universal theory of phase auto-oscillators driven by a bi harmonic signal (having frequency components close to single and double of the free-running oscillator frequency) with noise. With it, we show how deterministic phase…
A new method is introduced for analysis of interactions between time-dependent coupled oscillators, based on the signals they generate. It distinguishes unsynchronized dynamics from noise-induced phase slips, and enables the evolution of…
Qubit coherence times are critical to the performance of any robust quantum computing platform. For quantum information processing using arrays of polar molecules, a key performance parameter is the molecular rotational coherence time. We…
We present a search for axion-like polarization oscillations in the cosmic microwave background (CMB) with observations from the Keck Array. A local axion field induces an all-sky, temporally sinusoidal rotation of CMB polarization. A CMB…
Despite widespread and striking examples of physiological oscillations, their functional role is often unclear. Even glycolysis, the paradigm example of oscillatory biochemistry, has seen questions about its oscillatory function. Here, we…
Quantum technologies and experiments often require preparing systems in low-temperature states. Here, we investigate cooling schemes using feedback protocols modeled with a Quantum Fokker-Planck Master Equation (QFPME) recently derived by…