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access icon free Non-normality can facilitate pulsing in biomolecular circuits

© The Institution of Engineering and Technology
Received 02/02/2018, Accepted 21/04/2018, Revised 26/03/2018, Published 26/04/2018

Non-normality can underlie pulse dynamics in many engineering contexts. However, its role in pulses generated in biomolecular contexts is generally unclear. Here, the authors address this issue using the mathematical tools of linear algebra and systems theory on simple computational models of biomolecular circuits. They find that non-normality is present in standard models of feedforward loops. They used a generalised framework and pseudospectrum analysis to identify non-normality in larger biomolecular circuit models, finding that it correlates well with pulsing dynamics. Finally, they illustrate how these methods can be used to provide analytical support to numerical screens for pulsing dynamics as well as provide guidelines for design.

Inspec keywords: eigenvalues and eigenfunctions; feedforward; linear algebra; network analysis; molecular biophysics

Other keywords: engineering contexts; biomolecular contexts; larger biomolecular circuit models; biomolecular circuits; linear algebra; systems theory; standard models; nonnormality; simple computational models; pulse dynamics

Subjects: Probability theory, stochastic processes, and statistics; General fluid dynamics theory, simulation and other computational methods; Other topics in statistics

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