论文标题
临时和永久扰动的布尔网络的顺序控制
Sequential Control of Boolean Networks with Temporary and Permanent Perturbations
论文作者
论文摘要
直接细胞重编程使得将丰富的体细胞重新编程为所需细胞是可行的。它具有重生医学和组织工程的巨大潜力。在这项工作中，我们研究以布尔网络建模的生物网络的控制，以识别从源吸引子（不希望的细胞）到目标吸引子（所需细胞）的控制路径。我们没有在一步中实现控制，而是开发基于吸引者的顺序临时和永久控制方法（AST和ASP），以识别可以逐步改变动力学的一系列干预措施。为了提高其可行性，AST和ASP都仅将可观察到的吸引子作为中间体使用。他们可以找到最短的顺序路径，并确保目标吸引子的100％达到性能。我们将两种方法应用于几个现实生活中的生物网络，并将其性能与基于吸引子的顺序瞬时控制（ASI）进行比较。结果表明，AST和ASP具有比ASI更少的扰动的更丰富的控制路径集，这将极大地促进实际应用。
Direct cell reprogramming makes it feasible to reprogram abundant somatic cells into desired cells. It has great potential for regenerative medicine and tissue engineering. In this work, we study the control of biological networks, modelled as Boolean networks, to identify control paths driving the dynamics of the network from a source attractor (undesired cells) to the target attractor (desired cells). Instead of achieving control in one step, we develop attractor-based sequential temporary and permanent control methods (AST and ASP) to identify a sequence of interventions that can alter the dynamics in a stepwise manner. To improve their feasibility, both AST and ASP only use biologically observable attractors as intermediates. They can find the shortest sequential paths and guarantee 100% reachability of the target attractor. We apply the two methods to several real-life biological networks and compare their performance with the attractor-based sequential instantaneous control (ASI). The results demonstrate that AST and ASP have the ability to identify a richer set of control paths with fewer perturbations than ASI, which will greatly facilitate practical applications.
