An automated model reduction tool to guide the design and analysis of synthetic biological circuits

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Title An automated model reduction tool to guide the design and analysis of synthetic biological circuits
Authors Ayush Pandey, Richard M. Murray
Source 2019 International Workshop on Biodesign Automation (IWBDA)
Abstract We present an automated model reduction algorithm that uses quasi-steady state approximation based reduction to minimize the error between the desired outputs. Additionally, the algorithm minimizes the sensitivity of the error with respect to parameters to ensure robust performance of the reduced model in the presence of parametric uncertainties. We develop the theory for this model reduction algorithm and present the implementation of the algorithm that can be used to perform model reduction of given SBML models. To demonstrate the utility of this algorithm, we consider the design of a synthetic biological circuit to control the population density and composition of a consortium consisting of two different cell strains. We show how the model reduction algorithm can be used to guide the design and analysis of this circuit.
Type Conference paper
URL https://www.biorxiv.org/content/10.1101/640276v1
Tag PM19-iwbda
ID 2019e
Funding DARPA BioCon
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