Berlin 2018 – scientific programme
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DY: Fachverband Dynamik und Statistische Physik
DY 66: Poster: Stat. Phys. (Gen., Critical Phen., Biol.)
DY 66.10: Poster
Thursday, March 15, 2018, 15:30–18:00, Poster A
Accounting for the context-dependent effects in the modelling of synthetic genetic circuits — •Johannes Falk1, Maleen Hanst2, Heinz Koeppl2, and Barbara Drossel1 — 1Technische Universität Darmstadt, Institut für Festkörperphysik, Germany — 2Technische Universität Darmstadt, Bioinspired Communication Systems, Germany
Synthetic biology aims at designing modular genetic circuits that can be assembled according to the desired function. When embedded in a cell, a circuit module becomes a small subnetwork within a larger environmental network, and its dynamics is therefore affected by interactions with the environment. The environment not only causes extrinsic noise but also memory effects, which means that the dynamics of the subnetwork is affected by its past states via a memory function that is characteristic of the cellular environment. Using a modification of the Mori-Zwanzig projection formalism, we show how the modifications of the subnetwork dynamics due to the environment can be calculated for stochastic models. In particular, we derive analytical expressions of memory kernels for specific classes of environments that are derived from linear reaction networks. Furthermore, we present computer simulation results showing how the environment can destroy the periodic oscillations displayed by the isolated subnetwork.