Search for dissertations about: "reaction-diffusion master equation"

Found 4 swedish dissertations containing the words reaction-diffusion master equation.

  2. 1. Stochastic Simulation of Multiscale Reaction-Diffusion Models via First Exit Times

    Author : Lina Meinecke; Per Lötstedt; Stefan Engblom; Ramon Grima; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; computational systems biology; diffusion; first exit times; unstructured meshes; reaction-diffusion master equation; macromolecular crowding; excluded volume effects; finite element method; backward analysis; stochastic simulation; Beräkningsvetenskap med inriktning mot numerisk analys; Scientific Computing with specialization in Numerical Analysis;

    Abstract : Mathematical models are important tools in systems biology, since the regulatory networks in biological cells are too complicated to understand by biological experiments alone. Analytical solutions can be derived only for the simplest models and numerical simulations are necessary in most cases to evaluate the models and their properties and to compare them with measured data. READ MORE

  4. 2. Multiscale Stochastic Simulation of Reaction-Transport Processes : Applications in Molecular Systems Biology

    Author : Andreas Hellander; Per Lötstedt; Sverker Holmgren; Samuel Isaacson; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; stochastic simulation; chemical master equation; reaction-diffusion master equation; unstructured mesh; active transport; hybrid methods; URDME; Scientific Computing; Beräkningsvetenskap;

    Abstract : Quantitative descriptions of reaction kinetics formulated at the stochastic mesoscopic level are frequently used to study various aspects of regulation and control in models of cellular control systems. For this type of systems, numerical simulation offers a variety of challenges caused by the high dimensionality of the problem and the multiscale properties often displayed by the biochemical model. READ MORE

  5. 3. Intracellular Flows and Fluctuations

    Author : Johan Elf; Måns Ehrenberg; Peter Wolynes; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; Molecular biology; mesoscopic; reaction-diffusion; protein synthesis; amino acid; flow; fluctuations; Molekylärbiologi; Molecular biology; Molekylärbiologi; Molecular Biotechnology; Molekylär bioteknik;

    Abstract : Mathematical models are now gaining in importance for descriptions of biological processes. In this thesis, such models have been used to identify and analyze principles that govern bacterial protein synthesis under amino acid limitation. READ MORE

  6. 4. Numerical Solution Methods in Stochastic Chemical Kinetics

    Author : Stefan Engblom; Per Lötstedt; Wilhelm Huisinga; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; stochastic models; chemical master equation; mesoscopic kinetics; Markov property; jump process; moment closure problem; spectral-Galerkin method; high dimensional problem; hybrid methods; time-parallel; homogenization; Beräkningsvetenskap med inriktning mot numerisk analys; Scientific Computing with specialization in Numerical Analysis;

    Abstract : This study is concerned with the numerical solution of certain stochastic models of chemical reactions. Such descriptions have been shown to be useful tools when studying biochemical processes inside living cells where classical deterministic rate equations fail to reproduce actual behavior. READ MORE