论文标题
可拖动的非线性记忆充当捕获和解释动态行为的工具
Tractable nonlinear memory functions as a tool to capture and explain dynamical behaviours
论文作者
论文摘要
动态系统理论的数学方法用于一系列领域。这包括用于描述诸如蛋白质 - 蛋白质相互作用和基因调节网络等过程的生物学。当这些网络的大小和复杂性增加时,详细的动态模型变得笨拙,使它们难以探索和破译。这需要应用简化和粗晶状技术以获得解释性洞察力。在这里,我们证明Zwanzig-Mori投影方法可用于任意降低动态网络的维度,同时保留其动力学性能。我们表明,围绕准稳态状态近似的系统扩展允许在不知道动力学的情况下明确解决内存功能的解决方案。该方法不仅保留了相同的稳态,还可以复制原始系统的瞬变。该方法还正确预测了多稳态的动力学以及产生持续和阻尼振荡的网络。将方法应用于脊椎动物神经管(一个具有良好表征的发育转录网络)的基因调节网络,确定了监管网络负责其特征性瞬态行为的特征。综上所述,我们的分析表明,该方法广泛适用于多稳定动力学系统,并为理解其行为提供了强大而有效的方法。
Mathematical approaches from dynamical systems theory are used in a range of fields. This includes biology where they are used to describe processes such as protein-protein interaction and gene regulatory networks. As such networks increase in size and complexity, detailed dynamical models become cumbersome, making them difficult to explore and decipher. This necessitates the application of simplifying and coarse graining techniques in order to derive explanatory insight. Here we demonstrate that Zwanzig-Mori projection methods can be used to arbitrarily reduce the dimensionality of dynamical networks while retaining their dynamical properties. We show that a systematic expansion around the quasi-steady state approximation allows an explicit solution for memory functions without prior knowledge of the dynamics. The approach not only preserves the same steady states but also replicates the transients of the original system. The method also correctly predicts the dynamics of multistable systems as well as networks producing sustained and damped oscillations. Applying the approach to a gene regulatory network from the vertebrate neural tube, a well characterised developmental transcriptional network, identifies features of the regulatory network responsible dfor its characteristic transient behaviour. Taken together, our analysis shows that this method is broadly applicable to multistable dynamical systems and offers a powerful and efficient approach for understanding their behaviour.