Wright Jeremiah, Wagner Andreas
Department of Biochemistry, University of Zurich, Zurich, Switzerland.
BMC Syst Biol. 2008 Jun 29;2:55. doi: 10.1186/1752-0509-2-55.
Research in the field of systems biology requires software for a variety of purposes. Software must be used to store, retrieve, analyze, and sometimes even to collect the data obtained from system-level (often high-throughput) experiments. Software must also be used to implement mathematical models and algorithms required for simulation and theoretical predictions on the system-level.
We introduce a free, easy-to-use, open-source, integrated software platform called the Systems Biology Research Tool (SBRT) to facilitate the computational aspects of systems biology. The SBRT currently performs 35 methods for analyzing stoichiometric networks and 16 methods from fields such as graph theory, geometry, algebra, and combinatorics. New computational techniques can be added to the SBRT via process plug-ins, providing a high degree of evolvability and a unifying framework for software development in systems biology.
The Systems Biology Research Tool represents a technological advance for systems biology. This software can be used to make sophisticated computational techniques accessible to everyone (including those with no programming ability), to facilitate cooperation among researchers, and to expedite progress in the field of systems biology.
系统生物学领域的研究需要用于多种目的的软件。软件必须用于存储、检索、分析，有时甚至用于收集从系统层面（通常是高通量）实验中获得的数据。软件还必须用于实现系统层面模拟和理论预测所需的数学模型与算法。
我们推出了一个名为系统生物学研究工具（SBRT）的免费、易用、开源的集成软件平台，以促进系统生物学的计算工作。SBRT目前执行35种分析化学计量网络的方法以及来自图论、几何、代数和组合数学等领域的16种方法。新的计算技术可通过过程插件添加到SBRT中，为系统生物学软件开发提供了高度的可扩展性和统一框架。
系统生物学研究工具代表了系统生物学的一项技术进步。该软件可使复杂的计算技术为每个人所用（包括那些没有编程能力的人），促进研究人员之间的合作，并加快系统生物学领域的进展。
