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arXiv · 1306.4493

A temporal logic approach to modular design of synthetic biological circuits

Ezio Bartocci·Luca Bortolussi·Laura Nenzi
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Abstract

We present a new approach for the design of a synthetic biological circuit whose behaviour is specified in terms of signal temporal logic (STL) formulae. We first show how to characterise with STL formulae the input/output behaviour of biological modules miming the classical logical gates (AND, NOT, OR). Hence, we provide the regions of the parameter space for which these specifications are satisfied. Given a STL specification of the target circuit to be designed and the networks of its constituent components, we propose a methodology to constrain the behaviour of each module, then identifying the subset of the parameter space in which those constraints are satisfied, providing also a measure of the robustness for the target circuit design. This approach, which leverages recent results on the quantitative semantics of Signal Temporal Logic, is illustrated by synthesising a biological implementation of an half-adder.

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Ezio Bartocci, Luca Bortolussi, Laura Nenzi. 2013-06-19. A temporal logic approach to modular design of synthetic biological circuits. https://arxiv.org/abs/1306.4493

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