Related papers: An allosteric model of KaiC phosphorylation
Analog quantum algorithms are formulated in terms of Hamiltonians rather than unitary gates and include quantum adiabatic computing, quantum annealing, and the quantum approximate optimization algorithm (QAOA). These algorithms are…
Circadian oscillation provides selection advantages through synchronization to the daylight cycle. However, a reliable clock must be designed through two conflicting properties: entrainability to synchronize internal time with periodic…
Many organisms possess both a cell cycle to control DNA replication and a circadian clock to anticipate changes between day and night. In some cases, these two rhythmic systems are known to be coupled by specific, cross-regulatory…
Cell signaling, gene expression, and metabolism are affected by cell-cell heterogeneity and random changes in the environment. The effects of such fluctuations on cell signaling and gene expression have recently been studied intensively…
Living organisms need to be sensitive to a changing environment while also ignoring uninformative environmental fluctuations. Here, we show that the circadian clock in \textit{Synechococcus elongatus} can naturally tune its environmental…
In this technical note, we propose a practicable quantized sampled velocity data coupling protocol for synchronization of a set of harmonic oscillators. The coupling protocol is designed in a quantized way via interconnecting the velocities…
Classically integrable approximants are here constructed for a family of predominantly chaotic periodic systems by means of the Baker-Hausdorff-Campbell formula. We compare the evolving wave density for the corresponding exact quantum…
This work is motivated by a desire to understand transitions between stable equilibria observed in Stommel's 1961 thermohaline circulation model. We adapt the model, including a forcing parameter as a dynamic slow variable. The resulting…
Circadian rhythms are endogenous 24-hour oscillations that regulate physiology, metabolism, sleep-wake cycles, and cellular homeostasis. Drosophila melanogaster, a genetically tractable model organism, has played a foundational role in…
Cells generally convert nutrient resources to useful products via energy transduction. Accordingly, the thermodynamic efficiency of this conversion process is one of the most essential characteristics of living organisms. However, although…
The hair cells of the vertebrate inner ear convert mechanical stimuli to electrical signals. Two adaptation mechanisms are known to modify the ionic current flowing through the transduction channels of the hair bundles: a rapid process…
Intracellular Ca signals represent a universal mechanism of cell function. Messages carried by Ca are local, rapid, and powerful enough to be delivered over the thermal noise. A higher signal to noise ratio is achieved by a cooperative…
We study ensembles of globally coupled, nonidentical phase oscillators subject to correlated noise, and we identify several important factors that cause noise and coupling to synchronize or desychronize a system. By introducing noise in…
Atomic clocks are crucial for science and technology, but their sensitivity is often restricted by the standard quantum limit. To surpass this limit, correlations between particles or interrogation times must be leveraged. Although the…
The Escherichia coli chemoreceptors form an extensive array that achieves cooperative and adaptive sensing of extracellular signals. The receptors control the activity of histidine kinase CheA, which drives a nonequilibrium…
Biochemical oscillations are ubiquitous in living organisms. In an autonomous system, not influenced by an external signal, they can only occur out of equilibrium. We show that they emerge through a generic nonequilibrium phase transition,…
Cat qubits, a type of bosonic qubit encoded in a harmonic oscillator, can exhibit an exponential noise bias against bit-flip errors with increasing mean photon number. Here, we focus on cat qubits stabilized by two-photon dissipation, where…
This paper is concerned with open quantum harmonic oscillators with position-momentum system variables, whose internal dynamics and interaction with the environment are governed by linear quantum stochastic differential equations. A…
Different types of synchronization states are found when non-linear chemical oscillators are embedded into an active medium that interconnects the oscillators but also contributes to the system dynamics. Using different theoretical tools,…
The dynamics of quasicrystals is characterized by the existence of phason excitations in addition to the usual phonon modes. In order to investigate their interplay on an elementary level we resort to various one-dimensional model systems.…