Browsing University of Waterloo by Supervisor "Ingalls, Brian"
Now showing items 1-5 of 5
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Dimensionality Reduction of the Chemical Master Equation
(University of Waterloo, 2019-01-11)The dynamics of biochemical systems show significant variability when the reactant populations are small. Standard approaches via deterministic modeling exclude such variability. A well established stochastic model, the ... -
Efficient Finite-difference Methods for Sensitivity Analysis of Stiff Stochastic Discrete Models of Biochemical Systems
(University of Waterloo, 2017-12-07)In the study of Systems Biology it is necessary to simulate cellular processes and chemical reactions that comprise biochemical systems. This is achieved through a range of mathematical modeling approaches. Standard methods ... -
Mathematical Modeling of C elegans L1 aggregation
(University of Waterloo, 2020-01-16)First-stage larvae (L1s) of the nematode Caenorhabditis elegans aggregate after starvation. I develop a mathematical model of this behavior based on the classic Keller-Segel model. In the Keller-Segel model, organisms ... -
Microcolony Dynamics: Motion from Growth, Order, and Incompressibility
(University of Waterloo, 2023-04-27)Rod-shaped bacteria such as E. coli reproduce by expanding along their long axis and splitting into pairs of daughter cells. If conditions are favourable for growth, they will continue in this way, doubling repeatedly until ... -
Optimal Experimental Design Applied to Models of Microbial Gene Regulation
(University of Waterloo, 2020-12-22)Microbial gene expression is a comparatively well understood process, but regulatory interactions between genes can give rise to complicated behaviours. Regulatory networks can exhibit strong context dependence, time-varying ...