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Inner hair cells (IHCs) are the actual sensory receptors in hearing. Immature IHCs generate spontaneous calcium-dependent action potentials. Changing the characteristic of the Ca2Å signals modulates the amplitude and duration of the action potentials in these cells. These spontaneous action potential firing patterns are thought to be important for the development of the auditory system. The aim of this thesis is to gain a deeper understanding of the electrical activity and calcium signalling during development of IHCs from a mathematical point of view. A numerical bifurcation analysis is performed to delineate the relative contributions of the model parameters to the asymptotic behaviour of the model. In particular, we investigate the pattern of periodic solutions including single (normal) spiking, pseudoplateau burstings and complex solutions using two-parameter sections of the parameter space. We also demonstrate that a simplified (three-dimensional) model can generate similar dynamics as the original (four-dimensional) IHC model. This reduced model could be characterised by two fast and one slow or one fast and two slow variables depending on the parameters’ choice. Hence, the mechanisms underlying the bursting dynamics and mixed mode oscillations in the model are studied applying 1-slow/2-fast and 2-slow/1-fast analysis, respectively.

Circadian rhythms are the endogenous, roughly 24-hour rhythms that coordinate an organism's interaction with its cycling environment. The molecular mechanism underlying this physiological process is a cell-autonomous oscillator comprised of a complex regulatory network of interacting DNA, RNA and proteins that is surprisingly conserved across many different species. It is not a trivial task to understand how the positive and negative feedback loops interact to generate an oscillator capable of a) maintaining a 24-hour rhythm in constant conditions; b) entraining to external light and temperature signals; c) responding to pulses of light in a rather particular, predictable manner; and d) compensating itself so that the period is relatively constant over a large range of temperatures, even for mutations that affect the basal period of oscillation. Mathematical modeling is a useful tool for dealing with such complexity, because it gives us an object that can be quickly probed and tested in lieu of the experiment or actual biological system. If we do a good job designing the model, it will help us to understand the biology better by predicting the outcome of future experiments. The difficulty lies in properly designing a model, a task that is made even more difficult by an acute lack of quantitative data. Thankfully, our qualitative understanding of a particular phenomenon, i.e. the observed physiology of the cell, can often be directly related to certain mathematical structures. Bifurcation analysis gives us a glimpse of these structures, and we can use these glimpses to build our models with greater confidence. In this dissertation, I will discuss the particular problem of the circadian clock and describe a number of new methods and tools related to bifurcation analysis. These tools can effectively be applied during the modeling process to build detailed models of biological regulatory with greater ease. / Ph. D.

This master thesis is deals with phenomenon of bifurcation in DC drive. It contains theoretical part, results of simulations and measurements of real DC drive in laboratory. The simulations was made in MATLAB, their results are bifurcation diagrams for different value of parameters. Target of measurement in laboratory was observed bifurcation on the real DC drive. Results of measurement are too transformed to bifurcation diagrams.

Smooth muscle contraction regulates the size of the blood vessel lumen which directly affects the mechanical response of the vessel. Folding in arteries has been observed in arteries during excessive contraction, known as a coronary artery spasm. The interplay of muscle contraction, geometry, and material responses and their effects on stability can be understood through mathematical models. Here, we consider a three-layer cross-sectional model of a coronary artery with anisotropic properties and intimal thickening, and perform a linear stability analysis to investigate the circumferential folding patterns that emerge due to muscle contraction. Our model shows that a critical level of contractile activity yields a uniform strain distribution across the arterial wall. When the muscle is contracted above this critical level, the tissue behaves isotropically and it is more prone to circumferential instability. This theoretical framework could serve as a valuable tool to understand the relationship between arterial lumen morphology and wall contraction in health and disease.

There is a continuous demand for new and improved methods of understanding our climate system. The work in this thesis focuses on the study of delayed feedback and critical transitions. There is much room to develop upon these concepts in their application to the climate system. We explore the two concepts independently, but also note that the two are not mutually exclusive. The thesis begins with a review of delay differential equation (DDE) theory and the use of delay models in climate, followed by a review of the literature on critical transitions and examples of critical transitions in climate. We introduce various methods of deriving delay models from more complex systems. Our main results center around the Saltzman and Maasch (1988) model for the Pleistocene climate (`Carbon cycle instability as a cause of the late Pleistocene ice age oscillations: modelling the asymmetric response.' Global biogeochemical cycles, 2(2):177-185, 1988). We observe that the model contains a chain of first-order reactions. Feedback chains of this type limits to a discrete delay for long chains. We can then approximate the chain by a delay, resulting in scalar DDE for ice mass. Through bifurcation analysis under varying the delay, we discover a previously unexplored bistable region and consider solutions in this parameter region when subjected to periodic and astronomical forcing. The astronomical forcing is highly quasiperiodic, containing many overlapping frequencies from variations in the Earth's orbit. We find that under the astronomical forcing, the model exhibits a transition in time that resembles what is seen in paleoclimate records, known as the Mid-Pleistocene Transition. This transition is a distinct feature of the quasiperiodic forcing, as confi rmed by the change in sign of the leading nite-time Lyapunov exponent. Additional results involve a box model of the Atlantic meridional overturning circulation under a future climate scenario and time-dependent freshwater forcing. We find that the model exhibits multiple types of critical transitions, as well as recovery from potential critical transitions. We conclude with an outlook on how the work presented in this thesis can be utilised for further studies of the climate system and beyond.

In this thesis, we present a dynamical systems analysis of models of movement coordination, namely the Haken-Kelso-Bunz (HKB) model and the Jirsa-Kelso excitator (JKE). The dynamical properties of the models that can describe various phenomena in discrete and rhythmic movements have been explored in the models' parameter space. The dynamics of amplitude-phase approximation of the single HKB oscillator has been investigated. Furthermore, an approximated version of the scaled JKE system has been proposed and analysed. The canard phenomena in the JKE system has been analysed. A combination of slow-fast analysis, projection onto the Poincare sphere and blow-up method has been suggested to explain the dynamical mechanisms organising the canard cycles in JKE system, which have been shown to have different properties comparing to the classical canards known for the equivalent FitzHugh-Nagumo (FHN) model. Different approaches to de fining the maximal canard periodic solution have been presented and compared. The model of two HKB oscillators coupled by a neurologically motivated function, involving the effect of time-delay and weighted self- and mutual-feedback, has been analysed. The periodic regimes of the model have been shown to capture well the frequency-induced drop of oscillation amplitude and loss of anti-phase stability that have been experimentally observed in many rhythmic movements and by which the development of the HKB model has been inspired. The model has also been demonstrated to support a dynamic regime of stationary bistability with the absence of periodic regimes that can be used to describe discrete movement behaviours.

The co-existence of bursting activity and silence is a common property of various neuronal models. We describe a novel mechanism explaining the co-existence of and the transition between these two regimes. It is based on the specific homoclinic and Andronov-Hopf bifurcations of the hyper- and depolarized steady states that determine the co-existence domain in the parameter space of the leech heart interneuron models: canonical and simplified. We found that a sub-critical Andronov-Hopf bifurcation of the hyperpolarized steady state gives rise to small amplitude sub-threshold oscillations terminating through the secondary homoclinic bifurcation. Near the corresponding boundary the system can exhibit long transition from bursting oscillations into silence, as well as the bi-stability where the observed regime is determined by the initial state of the neuron. The mechanism found is shown to be generic for the simplified 4D and the original 14D leech heart interneuron models.

When excitable cardiac tissue is electrically paced at a sufficiently high rate, the duration of excitation can alternate from beat to beat despite a constant stimulation period. This rhythm, known as alternans, has been identified as an early stage in a sequence of increasingly complex instabilities leading to the lethal arrhythmia ventricular fibrillation (VF). This connection served as as a motivation for research into the control of alternans as a strategy to prevent VF. Control methods that do not use a model of the dynamics have been used for the suppression of alternans. However, these methods possess limitations. In this thesis we study theoretically model-based control techniques with the goal of developing protocols that would overcome the shortcomings of non model-based approaches. We consider one dimensional tissue in two different geometrical configurations: a ring and a fiber with free ends (open fiber). We apply standard control methods for linear time invariant systems to a stroboscopic map of the linearized dynamics around the normal rhythm. We found that, in the ring geometry, model-based control is able to suppress alternans faster and with lower current, thereby reducing the risk of tissue damage, compared with non-model-based control. In the open fiber, model-based control is able to suppress alternans for longer fibers and higher pacing frequencies in comparison with non-model-based control. The methodology presented here can be extended to two- and three-dimensional tissue, and could eventually lead to the suppression of alternans on the entire ventricles.