标题： DiSH模拟器：利用异构知识捕捉细胞信号传导的动力学 显示英文标题

标题： DiSH Simulator: Capturing Dynamics of Cellular Signaling with Heterogeneous Knowledge

摘要： 我们提出DiSH-Sim，这是一个用于生物信号转导通路的大规模离散模型模拟器，能够以确定性和随机方式模拟具有多值元素的网络。 我们关注更新顺序，并因此引入关于时间的信息，考虑到生物过程不是同步的，某些生化变化比其他变化发生得更慢。 我们的模拟器的另一个特点是使用分组规则来建模多值元素和延迟。 DiSH-Sim是公开可用的，并被用于验证离散癌症微环境和传染病模型。 它还被整合到一个大型架构中，该架构包括自然语言处理工具，这些工具读取生物学文献以组装逻辑模型。 本文展示了DiSH-Sim的功能和易用性，使其成为离散建模的一个非常有用的工具。 显示英文摘要

摘要： We present DiSH-Sim, a simulator for large discrete models of biological signal transduction pathways, capable of simulating networks with multi-valued elements in both deterministic and stochastic manner. We focus on order of update and thus incorporate information about timing, taking into account that biological processes are not synchronized and certain biochemical changes occur slower than others. Another feature of our simulator is the use of grouped rules to model multi-valued elements and delays. The DiSH-Sim is publicly available and is being used to validate discrete cancer microenvironment and infectious disease models. It is also incorporated within a large architecture that includes natural language processing tools that read biological literature to assemble logical models. This paper demonstrates the functionalities and ease of use of DiSH-Sim, making it a very useful tool for discrete modeling.