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Author: Martin Falcke Publisher: Springer ISBN: 9783662143988 Category : Science Languages : en Pages : 300
Book Description
Written as a set of tutorial reviews on both experimental facts and theoretical modelling, this volume is intended as an introduction and modern reference in the field for graduate students and researchers in biophysics, biochemistry and applied mathematics.
Author: Martin Falcke Publisher: Springer ISBN: 9783662143988 Category : Science Languages : en Pages : 300
Book Description
Written as a set of tutorial reviews on both experimental facts and theoretical modelling, this volume is intended as an introduction and modern reference in the field for graduate students and researchers in biophysics, biochemistry and applied mathematics.
Author: Martin Falcke Publisher: Springer Science & Business Media ISBN: 9783540402367 Category : Science Languages : en Pages : 318
Book Description
Written as a set of tutorial reviews on both experimental facts and theoretical modelling, this volume is intended as an introduction and modern reference in the field for graduate students and researchers in biophysics, biochemistry and applied mathematics.
Author: James Sneyd Publisher: Springer Science & Business Media ISBN: 9783540254393 Category : Mathematics Languages : en Pages : 228
Book Description
This book presents a series of models in the general area of cell physiology and signal transduction, with particular attention being paid to intracellular calcium dynamics, and the role played by calcium in a variety of cell types. Calcium plays a crucial role in cell physiology, and the study of its dynamics lends insight into many different cellular processes. In particular, calcium plays a central role in muscular contraction, olfactory transduction and synaptic communication, three of the topics to be addressed in detail in this book. In addition to the models, much of the underlying physiology is presented, so that readers may learn both the mathematics and the physiology, and see how the models are applied to specific biological questions. It is intended primarily as a graduate text or a research reference. It will serve as a concise and up-to-date introduction to all those who wish to learn about the state of calcium dynamics modeling, and how such models are applied to physiological questions.
Author: Geneviève Dupont Publisher: Springer ISBN: 3319296477 Category : Mathematics Languages : en Pages : 453
Book Description
This book discusses the ways in which mathematical, computational, and modelling methods can be used to help understand the dynamics of intracellular calcium. The concentration of free intracellular calcium is vital for controlling a wide range of cellular processes, and is thus of great physiological importance. However, because of the complex ways in which the calcium concentration varies, it is also of great mathematical interest.This book presents the general modelling theory as well as a large number of specific case examples, to show how mathematical modelling can interact with experimental approaches, in an interdisciplinary and multifaceted approach to the study of an important physiological control mechanism. Geneviève Dupont is FNRS Research Director at the Unit of Theoretical Chronobiology of the Université Libre de Bruxelles; Martin Falcke is head of the Mathematical Cell Physiology group at the Max Delbrück Center for Molecular Medicine, Berlin; Vivien Kirk is an Associate Professor in the Department of Mathematics at the University of Auckland, New Zealand; James Sneyd is a Professor in the Department of Mathematics at The University of Auckland, New Zealand.
Author: James Sneyd Publisher: Springer ISBN: 9783540254393 Category : Mathematics Languages : en Pages : 202
Book Description
This book presents a series of models in the general area of cell physiology and signal transduction, with particular attention being paid to intracellular calcium dynamics, and the role played by calcium in a variety of cell types. Calcium plays a crucial role in cell physiology, and the study of its dynamics lends insight into many different cellular processes. In particular, calcium plays a central role in muscular contraction, olfactory transduction and synaptic communication, three of the topics to be addressed in detail in this book. In addition to the models, much of the underlying physiology is presented, so that readers may learn both the mathematics and the physiology, and see how the models are applied to specific biological questions. It is intended primarily as a graduate text or a research reference. It will serve as a concise and up-to-date introduction to all those who wish to learn about the state of calcium dynamics modeling, and how such models are applied to physiological questions.
Author: James Sneyd Publisher: Springer ISBN: 9783540809579 Category : Mathematics Languages : en Pages : 202
Book Description
This book presents a series of models in the general area of cell physiology and signal transduction, with particular attention being paid to intracellular calcium dynamics, and the role played by calcium in a variety of cell types. Calcium plays a crucial role in cell physiology, and the study of its dynamics lends insight into many different cellular processes. In particular, calcium plays a central role in muscular contraction, olfactory transduction and synaptic communication, three of the topics to be addressed in detail in this book. In addition to the models, much of the underlying physiology is presented, so that readers may learn both the mathematics and the physiology, and see how the models are applied to specific biological questions. It is intended primarily as a graduate text or a research reference. It will serve as a concise and up-to-date introduction to all those who wish to learn about the state of calcium dynamics modeling, and how such models are applied to physiological questions.
Author: James Rosado Publisher: ISBN: Category : Languages : en Pages : 0
Book Description
A paramount question in the study of Calcium (Ca2+) signaling is how this ion regulates a wide spectrum of cellular processes, which include: fertilization, proliferation, learning, memory, and cell death. All of these processes are the result of synaptic strengthening and weakening. Part of the answer lies in the spatial-temporal interactions of Ca2+ at the extracellular and intracellular levels of a neuron. Within these levels of a neuron there is a complex concert of Ca2+ ion exchange and transport mechanisms that are activated (or inactivated) by external stimuli and it remains to be studied the role of these interactions at the ultrastructural scale. One mode of external stimulation is by Transcranial Magnetic Stimulation (TMS) and repetitive TMS (rTMS). TMS is a noninvasive brain stimulation method to modulate humanbrain activity by generating a strong magnetic field near the cranium. The magnetic field induces an electric field which depolarizes neurons; therefore, TMS is used in clinical applications to treat neuropsychiatric and neurological disorders. However, it is not well known the effect of TMS on intracellular Ca2+ interactions; therefore, I endeavor to determine the types of calcium interactions that occur when a neuron experiences TMS. I also determine how intracellular calcium mechanisms are affected by TMS stimuli. In particular, the cellular regulators of calcium are given by: the internal Ca2+ store ("calcium bank") of a neuron called the endoplasmic reticulum (ER) with spine apparatus (SA), the voltage dependent calcium channels (VDCCs), and calcium influx at synaptic spines. Ultimately, the ER is responsible for synaptic plasticity and from here I determined under what conditions does TMS cause intracellular calcium to induce synaptic plasticity. For the first part of this dissertation I describe the neurobiology, model equations, and methods that are employed in understanding the role of intracellular calcium. Simulating calcium dynamics at the ultrastructural level is computationally expensive when including the effects of TMS in concert with intracellular calcium transport mechanism. Therefore, I also identify the numerical methodologies that provide the best results in terms of numerical accuracy to the physiology of the intracellullar dynamics and the parameters such as error and time step size that yield sufficient results. I will also describe the framework used in this study (i.e., UG4) and the pipeline for performing my studies, this includes: the process from microscopy to computational domains, generating and preserving mesh features, the choice of numerical methods, and the process of parallelizing the simulations. In the second part, I dive into the electro-dynamic mechanisms that cause voltage propagation through a neuron. This is of particular importance, because many ion membrane transport mechanisms depend on plasma membrane voltage. The simulations coded and executed in MatLab are used to drive calcium dynamics which is discussed in the third part of the dissertation. I will also take the opportunity to explain a case study involving virtual reality with the Hodgkin-Huxley electrical model for voltage propagation. Additionally, I incorporate synaptic communication which is driven by TMS protocols or simulated by voltage clamps, and both provide a mechanism by which intracellular calcium transients occurs. For the third chapter I discuss the calcium dynamic mechanisms that are inside of neurons and I discuss the methodology I take to setup a simulation and perform simulations. This includes the steps taken to process microscopy images to generate computational domains, implementing the model equations, and utilizing appropriate numerical schemes. I also discuss several preliminary examples as proof of concept to my simulation pipeline and I give results involving the regulation of calcium with respect to intracellular mechanisms. The fourth part of this dissertation describes the steps for running TMS simulations using voltage data from electrical simulations to drive calcium signaling events. In particular, I discuss the tool NeMo-TMS which uses voltage and calcium simulations together to draw conclusions with respect to intracellular calcium propagation. I describe the multi-scale paradigm that is used, model equations, and computational domains that are used and provide several examples of results from this modeling pipeline. Of particular importance, I provide discussion on the coupling of data from electrical simulations and biochemical simulations, i.e. I use TMS induced voltage data to drive voltage dependent calcium release and I examine the effects of TMS induced back propagating action potentials.
Author: Zana Coulibaly Publisher: ISBN: Category : Languages : en Pages : 224
Book Description
Organized calcium releases are the meansthrough which the heart regulates the uniform contraction of individual cardiac cells during each heartbeat. At a cardiac cell level, the process involved in the regulation of calcium levels can be modeled using non-linear time-dependent reaction-diffusion equations. This thesis uses various mathematical and analytical tools to study the dynamics of calcium that results from the study of a three-dimensional stochastic fire-diffuse-fire model in long time simulations. To ease the computational complexity that comes with the exploration of sensitive model parameters in long time simulations, we consider one-dimensional model reductions; these reductions lead to the discovery of a parameter region that supports biophysical calcium waves in the 3D model. These biophysical calcium waves are achieved in our model by using large calcium currents. A further exploration of the biophysical boundary in the parameter space reveals a range of parameter values that have a high probability of initiating spiral patterns. By treating the calcium dynamics as one emerging from a network of inhomogeneous point processes, we show that the intrinsic appearance of such patterns in our model is the result of an interplay between the spatial regularity of release sites and the amplitude of calcium release. Neither forced temporal heterogeneity nor spatial irregularity is required.
Author: Martin Falcke
Author: Martin Falcke
Author: Martin Falcke
Author: James Sneyd
Author: Geneviève Dupont
Author: Steven Michael Snyder
Author: Kiarash Shahlaie
Author: James Sneyd
Author: James Sneyd
Author: James Rosado
Author: Zana Coulibaly