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Qualitative Analysis of Mammalian Circadian Oscillations: Cycle Dynamics and Robustness

Ousmane Diop 1 Madalena Chaves 2 Laurent Tournier 1
2 BIOCORE - Biological control of artificial ecosystems
CRISAM - Inria Sophia Antipolis - Méditerranée , LOV - Laboratoire d'océanographie de Villefranche, INRAE - Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement
Abstract : In asynchronous Boolean models, periodic solutions are represented by terminal strongly connected graphs, which are typically composed of hundreds of states and transitions. For biological systems, it becomes a challenging task to compare such mathematical objects with biological knowledge, or interpret the transitions inside an attractor in terms of the sequence of events in a biological cycle. A recent methodology generates summary graphs to help visualizing complex asynchronous attractors and order the dynamic progression based on known biological data. In this article we apply this method to a Boolean model of the mammalian circadian clock, for which the summary graph recovers the main phases of the cycle, in the expected order. It also provides a detailed view of the attractor, suggesting improvements in the design of the model's logical rules and highlighting groups of transitions that are essential for the attractor's robustness.
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https://hal.inria.fr/hal-03105583
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Submitted on : Monday, January 11, 2021 - 10:51:21 AM
Last modification on : Tuesday, January 12, 2021 - 3:32:39 AM

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Ousmane Diop, Madalena Chaves, Laurent Tournier. Qualitative Analysis of Mammalian Circadian Oscillations: Cycle Dynamics and Robustness. CMSB 2020 - 18th International Conference on Computational Methods in Systems Biology, Sep 2020, Konstanz, Germany. pp.176-192, ⟨10.1007/978-3-030-60327-4_10⟩. ⟨hal-03105583⟩

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