Qualitative Analysis of Mammalian Circadian Oscillations: Cycle Dynamics and Robustness
Qualitative Analysis of Mammalian Circadian Oscillations: Cycle Dynamics and Robustness
复制标题
哺乳动物昼夜节律振荡的定性分析：周期动力学和稳健性
DOI：
10.1007/978-3-030-60327-4_10
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发表时间：
2020
期刊：
影响因子：
--
通讯作者：
L. Tournier
中科院分区：
文献类型：
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作者：
Ousmane Diop;M. Chaves;L. Tournier
在异步布尔模型中，周期解由终端强连接图表示，终端强连接图通常由数百个状态和转换组成。对于生物系统来说，将这样的数学对象与生物学知识进行比较，或者根据生物循环中的事件序列来解释吸引子内部的转变，成为一项具有挑战性的任务。最近的一种方法生成汇总图，以帮助可视化复杂的异步吸引子，并根据已知的生物数据对动态进程进行排序。在本文中，我们将这种方法应用于哺乳动物生物钟的布尔模型，其摘要图恢复了周期的主要阶段，按照预期的顺序。它还提供了吸引子的详细视图，建议改进模型的逻辑规则设计，并强调了对吸引子的鲁棒性至关重要的过渡组。
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.