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Cell systems consist of a huge number of various molecules that display specific patterns of interactions, which have a determining influence on the cell's functioning. In general, such complexity is seen to increase with the complexity of…
Nonlinear thermoelastic systems play a crucial role in understanding thermal conductivity, stresses, elasticity, and temperature interactions. This research focuses on finding solutions to these systems in their fractional forms, which is a…
We investigate the thermalization of a stochastic system with discrete phase space, initially at equilibrium at temperature $T_i$ and then termalizing in an environment at temperature $T_f$ , considering both cases $T_i > T_f$ and $T_i <…
Stuart-Landau limit-cycle oscillators are a paradigm in the study of coherent and incoherent limit cycles. In this work, we generalize the standard Stuart-Landau dimer model to include effects due to an inertia-like term and noise and study…
In this paper we study the dynamics of stochastic microorganism flocculation models. Given the strong influence of environmental and seasonal fluctuations that are present in these models, we propose a stochastic model that includes…
This thesis investigates the interactions of different degrees of freedom of one joint system within the theory of stochastic thermodynamics. First, a comprehensive introduction to the subjects of stochastic processes, information theory…
We study the frequency and phase synchronization in two coupled identical and nonidentical neurons with channel noise. The occupation number method is used to model the neurons in the context of stochastic Hodgkin-Huxley model in which the…
Transitions in the dynamics of complex systems can be characterized by changes in the synchronization behavior of their components. Taking the human cardio-respiratory system as an example and using an automated procedure for screening the…
We consider the problem of estimating the dynamic latent states of an intracellular multiscale stochastic reaction network from time-course measurements of fluorescent reporters. We first prove that accurate solutions to the filtering…
The synchronization stability of a complex network system of coupled phase oscillators is discussed. In case the network is affected by disturbances, a stochastic linearized system of the coupled phase oscillators may be used to determine…
Oscillation is an important cellular process that regulates timing of different vital life cycles. However, in the noisy cellular environment, oscillations can be highly inaccurate due to phase fluctuations. It remains poorly understood how…
In a previous work, we presented a model that integrates cancer cell differentiation and immunotherapy, analysing a particular therapy against cancer stem cells by cytotoxic cell vaccines. As every biological system is exposed to random…
Synchronization by exchange of pulses is a widespread phenomenon, observed in flashing fireflies, applauding audiences and the neuronal network of the brain. Hitherto the focus has been on integrate-and-fire oscillators. Here we consider…
In non-linear dynamics there are several model systems to study oscillations. One iconic example is the "Brusselator", which describes the dynamics of the concentration of two chemical species in the non-equilibrium phase. In this work we…
We study the fluctuations of work done and dissipated heat of a Brownian particle in a symmetric double well system. The system is driven by two periodic input signals that rock the potential simultaneously. Confinement in one preferred…
We develop a framework for the stochastic thermodynamics of a probe coupled to a fluctuating medium with spatio-temporal correlations, described by a scalar field. For a Brownian particle dragged by a harmonic trap through a fluctuating…
Oscillations in nonequilibrium noisy systems are important physical phenomena. These oscillations can happen in autonomous biochemical oscillators such as circadian clocks. They can also manifest as subharmonic oscillations in periodically…
It is generally assumed that a condensate of paired fermions at equilibrium is characterized by a macroscopic wavefunction with a well-defined, immutable phase. In reality, all systems have a finite size and are prepared at non-zero…
Compartmentalization of biochemical processes underlies all biological systems, from the organelle to the tissue scale. Theoretical models to study the interplay between noisy reaction dynamics and compartmentalization are sparse, and…
Large fluctuations have received considerable attention as they encode information on the fine-scale dynamics. Large deviation relations known as fluctuation theorems also capture crucial nonequilibrium thermodynamical properties. Here we…