Tav4SB: integrating tools for analysis of kinetic models of biological systems.
Tav4SB: integrating tools for analysis of kinetic models of biological systems.
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DOI：
10.1186/1752-0509-6-25
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发表时间：
2012-04-05
影响因子：
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通讯作者：
Gambin A
中科院分区：
文献类型：
--
作者：
Rybiński M;Lula M;Banasik P;Lasota S;Gambin A
生物系统建模的进展强烈依赖于专业的计算机辅助工具的可用性。
Taverna Systems Biology（TAV4SB）项目提供了一组新的Web服务操作，该操作扩展了Taverna Workbench在系统生物学领域中的功能。或在此功能上的生物学模型，TAV4SB可以构建高级实验，作为我们项目提供的可能性。还提供了绘图操作。可以在TAV4SB项目的网页上找到：http：//bioputer.mimuw.edu.pl/tav4sb/。
TAV4SB Web服务在域中提供了一组集成的工具，基于Web的应用程序仍然不及计算生物学的其他领域，我们扩展了用于模拟蜂窝模型的专用硬件基础。最后，我们促进了模型和实验的标准化以及远程服务的可访问性和可用性。
Progress in the modeling of biological systems strongly relies on the availability of specialized computer-aided tools. To that end, the Taverna Workbench eases integration of software tools for life science research and provides a common workflow-based framework for computational experiments in Biology. The Taverna services for Systems Biology (Tav4SB) project provides a set of new Web service operations, which extend the functionality of the Taverna Workbench in a domain of systems biology. Tav4SB operations allow you to perform numerical simulations or model checking of, respectively, deterministic or stochastic semantics of biological models. On top of this functionality, Tav4SB enables the construction of high-level experiments. As an illustration of possibilities offered by our project we apply the multi-parameter sensitivity analysis. To visualize the results of model analysis a flexible plotting operation is provided as well. Tav4SB operations are executed in a simple grid environment, integrating heterogeneous software such as Mathematica, PRISM and SBML ODE Solver. The user guide, contact information, full documentation of available Web service operations, workflows and other additional resources can be found at the Tav4SB project’s Web page: http://bioputer.mimuw.edu.pl/tav4sb/. The Tav4SB Web service provides a set of integrated tools in the domain for which Web-based applications are still not as widely available as for other areas of computational biology. Moreover, we extend the dedicated hardware base for computationally expensive task of simulating cellular models. Finally, we promote the standardization of models and experiments as well as accessibility and usability of remote services.