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Circadian rhythms are known to be important drivers of human activity and the recent availability of electronic records of human behaviour has provided fine-grained data of temporal patterns of activity on a large scale. Further,…
The ability of a circadian system to entrain to the 24-hour light-dark cycle is one of its most important properties. A new tool, called the entrainment map, was recently introduced to study this process for a single oscillator. Here we…
Circadian rhythms are endogenous oscillations that regulate various physiological processes and their disruption has been linked to many diseases, making it important to determine how gene-expression rhythms are altered across genotypes,…
Biological rhythms are generated by pacemaker organs, such as the heart pacemaker organ (the sinoatrial node) and the master clock of the circadian rhythms (the suprachiasmatic nucleus), which are composed of a network of autonomously…
Recently we developed a local and constructive algorithm based on Lie algebraic methods for compressing Trotterized evolution under Hamiltonians that can be mapped to free fermions. The compression algorithm yields a circuit which scales…
Collisions with background gas particles can shift the resonance frequencies of atoms in atomic clocks. The internal quantum states of atoms can also become entangled with their motional states due to the recoil imparted by a collision,…
Modern time series gene expression and other omics data sets have enabled unprecedented resolution of the dynamics of cellular processes such as cell cycle and response to pharmaceutical compounds. In anticipation of the proliferation of…
Spin squeezing is a form of entanglement that can improve the stability of quantum sensors operating with multiple particles, by inducing inter-particle correlations that redistribute the quantum projection noise. Previous analyses of…
We study the effects of time delayed linear and nonlinear feedbacks on the dynamics of a single Hopf bifurcation oscillator. Our numerical and analytic investigations reveal a host of complex temporal phenomena such as phase slips,…
A Pulse-Compression Probing (PCP) method is applied in time-domain to identify an equivalent circuit model of a distribution network as seen from the transmission grid. A Pseudo-Random Binary Pulse Train (PRBPT) is injected as a voltage…
Genetic oscillators, such as circadian clocks, are constantly perturbed by molecular noise arising from the small number of molecules involved in gene regulation. One of the strongest sources of stochasticity is the binary noise that arises…
Automated verification of living organism models allows us to gain previously unknown knowledge about underlying biological processes. In this paper, we show the benefits to use parametric time Petri nets in order to analyze precisely the…
Specific activator and repressor transcription factors which bind to specific regulator DNA sequences, play an important role in gene activity control. Interactions between genes coding such transcription factors should explain the…
How does soil pollution affect a plant's circadian clock? Are there any differences between how the clock reacts when exposed to different concentrations of elements of the periodic table? If so, can we characterise these differences? We…
Sleep is essential for the maintenance of the brain and the body, yet many features of sleep are poorly understood and mathematical models are an important tool for probing proposed biological mechanisms. The most well-known mathematical…
Circadian rhythms are a process of the sleep-wake cycle that regulates the physical, mental and behavioural changes in all living beings with a period of roughly 24 h. Wearable accelerometers are typically used in livestock applications to…
The current algorithms are based on linear model, for example, Precision Time Protocol (PTP) which requires frequent synchronization in order to handle the effects of clock frequency drift. This paper introduces a nonlinear approach to…
We propose a paradigmatic model system, a subcritical Hopf normal form subjected to noise and time-delayed feedback, to investigate the impact of time delay on coherence resonance in non-excitable systems. We develop analytical tools to…
We present a model of systems of cells with intracellular oscillators (`clocks'). This is motivated by examples from developmental biology and from the behavior of organisms on the threshold to multicellularity. Cells undergo random motion…
Time dependence is a universal phenomenon in nature, and a variety of mathematical models in terms of dynamical systems have been developed to understand the time-dependent behavior of real-world problems. Originally constructed to analyze…