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Conference Papers Year : 2023

Condition for periodic attractor in 4-dimensional repressilators

Honglu Sun
Maxime Folschette
Morgan Magnin

Abstract

One of the key questions about gene regulatory networks is how to predict complex dynamical properties based on the influence graph's topology. Earlier theoretical studies have identified conditions for complex dynamical properties, like multistability or oscillations, based on topological features, like the presence of a positive (negative) feedback loop. This work follows this path and aims to find a sufficient and necessary condition for the existence of a periodic attractor in 4-dimensional (4 genes) repressilators based on a discrete modeling framework under some dynamical assumptions. These networks are extensions of the widely studied 3-dimensional repressilator, which has been used in synthetic biology to produce synthetic oscillations. While other researchers have explored specific extensions of the 3-dimensional repressilator to improve synthetic oscillation control, our work investigates all 4-dimensional networks with only inhibitions. By uncovering new insights about periodic attractors in these small networks, our findings could aid the design of new synthetic oscillations. We search for condition for period attractor in an exhaustive manner with the guide of a decision tree model. Our major contributions include: 1) discovering that, with one exception, the relations between gene regulation thresholds do not impact the existence of periodic attractors in any of the influence graphs considered in this study; 2) identifying a sufficient and necessary condition of simple form for the existence of a periodic attractor when the exception is ignored; 3) identifying new topological features of influence graphs that are necessary for predicting the existence of periodic attractor in 4-dimensional repressilators.
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hal-04135182 , version 1 (20-06-2023)

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Honglu Sun, Maxime Folschette, Morgan Magnin. Condition for periodic attractor in 4-dimensional repressilators. 21st International Conference on Computational Methods in Systems Biology (CMSB 2023), Sep 2023, Luxembourg City, Luxembourg. pp.184-201, ⟨10.1007/978-3-031-42697-1_13⟩. ⟨hal-04135182⟩
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