Slater Ted
OpenBEL Consortium, One Alewife Center, Suite 100, Cambridge, MA 02140, USA.
Drug Discov Today. 2014 Feb;19(2):193-8. doi: 10.1016/j.drudis.2013.12.011. Epub 2014 Jan 17.
As our theories of systems biology grow more sophisticated, the models we use to represent them become larger and more complex. Languages necessarily have the expressivity and flexibility required to represent these models in ways that support high-resolution annotation, and provide for simulation and analysis that are sophisticated enough to allow researchers to master their data in the proper context. These languages also need to facilitate model sharing and collaboration, which is currently best done by using uniform data structures (such as graphs) and language standards. In this brief review, we discuss three of the most recent systems biology modeling languages to appear: BEL, PySB and BCML, and examine how they meet these needs.
随着我们的系统生物学理论变得越来越复杂，我们用于表示这些理论的模型也变得更大、更复杂。语言必须具备以支持高分辨率注释的方式表示这些模型所需的表达能力和灵活性，并提供足够复杂的模拟和分析，使研究人员能够在适当的背景下掌握他们的数据。这些语言还需要促进模型共享和协作，目前通过使用统一的数据结构（如图）和语言标准来实现这一点是最好的方法。在这篇简短的综述中，我们讨论了最近出现的三种系统生物学建模语言：BEL、PySB和BCML，并研究它们如何满足这些需求。
