ARDesigner: a web-based system for allosteric RNA design.
ARDesigner: a web-based system for allosteric RNA design.
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DOI：
10.1016/j.jbiotec.2010.10.067
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发表时间：
2010-12
影响因子：
4.1
通讯作者：
Wenjie Shu;Ming Liu;Hebing Chen;Xiaochen Bo;Shengqi Wang
中科院分区：
文献类型：
--
作者：
Wenjie Shu;Ming Liu;Hebing Chen;Xiaochen Bo;Shengqi Wang
RNA分子在分子生物学中发挥着重要的信息、结构和功能作用，使其成为合成生物学的理想靶标。然而，一些挑战仍然工程新的变构RNA分子，有效的计算设计技术的发展是至关重要的。在这里，我们描述了变构RNA设计器（ARDesigner），一个用户友好的和免费提供的基于网络的系统变构RNA设计，在设计过程中纳入突变的鲁棒性的发展。系统输出包括图形HTML格式的详细设计信息。我们使用ARDesigner设计了一个温度敏感的AR，并发现最终的设计满足规定的属性/输入。ARDesigner为研究人员设计具有特定特性的变构RNA提供了一种简单的方法。凭借其多功能的框架和进一步增强的可能性，ARDesigner可以作为合成生物学家和治疗设计的有用工具。ARDesigner及其可执行版本可在http://biotech.bmi.ac.cn/ARDesigner上免费获得。
RNA molecules play vital informational, structural, and functional roles in molecular biology, making them ideal targets for synthetic biology. However, several challenges remain for engineering novel allosteric RNA molecules, and the development of efficient computational design techniques is vitally needed. Here we describe the development of Allosteric RNA Designer (ARDesigner), a user-friendly and freely available web-based system for allosteric RNA design that incorporates mutational robustness in the design process. The system output includes detailed design information in a graphical HTML format. We used ARDesigner to engineer a temperature-sensitive AR, and found that the resulting design satisfied the prescribed properties/input. ARDesigner provides a simple means for researchers to design allosteric RNAs with specific properties. With its versatile framework and possibilities for further enhancement, ARDesigner may serve as a useful tool for synthetic biologists and therapeutic design. ARDesigner and its executable version are freely available at http://biotech.bmi.ac.cn/ARDesigner.