AI 中文总结
该研究提出一种不依赖动力学参数的可允许转移新结构概念，建立了连接生物反应网络拓扑与瞬态演化的结构层，拓展了反应网络分析的应用范围。
AI 中文摘要
生物反应网络常呈现无法仅通过稳态或长期持久性分析解释的复杂瞬态行为。现有结构方法可识别系统的持久性质，并已考虑组织间的转移，但未为任意物种构型间的可允许转移提供通用准则。我们引入可允许转移这一新结构概念，仅利用反应网络结构和可行反应通量来描述物种子集间的可行变化，且不依赖动力学参数。我们证明，基于反应的常微分方程组的解会诱导可允许转移的规范序列，且具有基本不对称性：构建闭包的转移由网络结构唯一确定，而向下转移通常不唯一且依赖于实际轨迹。这建立了将网络拓扑与系统瞬态演化关联的结构层。该框架通过经典HIV免疫应答模型进行说明。通过将结构反应网络分析从持久状态扩展至瞬态动力学，所提出的理论为分析生物系统中的可达性、组织形成和瞬态行为提供了通用的、与动力学无关的框架。
英文摘要
Biological reaction networks often exhibit complex transient behavior that cannot be explained solely by the analysis of steady states or long-term persistence. Existing structural approaches identify persistent system properties and have considered transitions between organizations, but do not provide a general criterion for admissible transitions between arbitrary species configurations. We introduce admissible transitions, a new structural concept that describes feasible changes between species subsets using only reaction network structure and feasible reaction fluxes, independently of kinetic parameters. We prove that solutions of reaction-based ordinary differential equation systems induce canonical sequences of admissible transitions with a fundamental asymmetry: closure-building transitions are uniquely determined by network structure, whereas downward transitions are generally non-unique and depend on the realized trajectory. This establishes a structural layer linking network topology to transient system evolution. The framework is illustrated using a classical HIV immune-response model. By extending structural reaction network analysis from persistent states to transient dynamics, the proposed theory provides a general, kinetics-independent framework for analyzing reachability, organization formation, and transient behavior in biological systems.
Comments17 pages, 3 figures
