Abstract
Interdisciplinary Case Study: How Mathematicians and Biologists Found Order in Cellular Noise
Highlights
PROXIMITY The Paper Originated with a PhD Rotation Rackauckas joined the Mathematical, Computational, and Systems Biology Gateway program at UCI, which is an interdisciplinary starter program that has first year PhDs do laboratory rotations in both a ‘‘dry’’ and a ‘‘wet’’(biological) laboratory
Rackauckas started to work on the zebrafish hindbrain system with a mathematical laboratory rotation focused on stochastic simulation with Qing Nie, and rotated with Schilling’s laboratory to clone crabp2b and learn/help with florescence lifetime imaging microscopy
These two groups were collaborating on a project establishing the existence of noise control in the zebrafish hindbrain, but whereas the resulting publication could show noise control both in experiments and simulations, how such a property could arise was not understood
Summary
Interdisciplinary biological modeling seems to differ from ‘‘pure’’ mathematical biological modeling since having an expert in the system there at each discussion drives you toward a form of realism that pushes mathematical and Having an expert in the biological system in the room at each computational methods to their limits. One of the difficulties of this project was demonstrating the spatial effects since the original MATLAB code and their Euler-Maruyama discretizations were not scaling to the stiff stochastic partial differential equations with downstream Hox/Krox effects with the associdiscussion drove the project towards a form of realism that pushed mathematical and ated feedbacks. Instead of simplifying the model, it instead became a simultaneous project to build new simulator codes capable of such scale. Differential Equations were driven by the need to solve the model without extra simplifications
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