Collaborative Research: The Molecular Programming Project

合作研究：分子编程项目

• 批准号: 0832824
• 负责人: Erik Winfree
• 金额: $ 833.33万
• 依托单位: California Institute of Technology
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2008
• 资助国家: 美国
• 起止时间: 2008-08-15 至 2014-07-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0832824&HistoricalAwards=false
• 关键词: Collaborative; Research; Molecular; Programming; Project

There is great potential for adapting biopolymer molecules such as RNA and DNA to meaningful computational tasks and purposes. Having the ability to program molecules at many orders of magnitude larger scale than at present using new algorithms and software analogues has the potential to change the way we analyze, understand and manipulate molecular systems. It can lead to practical applications of significant benefit to society across a wide range of national initiatives in materials, nano-biotechnology, tissue engineering, regenerative medicine, and many other emerging areas. This ambitious Expedition addresses the exciting challenge of developing initial foundational steps toward creating large-scale molecular programs. This experimental technology Expedition aims to develop a functional abstraction hierarchy to create molecular programming languages, compilers, tools and models; a theoretical framework for the analysis and design of molecular programs; validation of the above utilizing molecular programs with orders of magnitude higher scale of components than at present; and testing of the developed molecular programming technologies on real-world applications. This high-risk/high-payoff research will increase our understanding of the relationship between computation and the physical world, how information can be stored and processed by molecules, and the possibilities and limits of what can be computed and fabricated. Outreach includes summer undergraduate and minority student research fellowships, K-12 visiting days, boot camps, workshops and many other efforts to create a broader molecular programming research community.

将RNA和DNA等生物聚合物分子应用于有意义的计算任务和目的有很大的潜力。利用新的算法和软件类似物对分子进行比目前更大数量级的编程，有可能改变我们分析、理解和操纵分子系统的方式。它可以通过材料、纳米生物技术、组织工程、再生医学和许多其他新兴领域的广泛国家倡议，为社会带来重大利益的实际应用。这个雄心勃勃的远征解决了开发初始基础步骤以创建大规模分子程序的激动人心的挑战。这项实验技术旨在开发一个功能抽象层次，以创建分子编程语言、编译器、工具和模型；分子程序分析与设计的理论框架利用比目前更高数量级的组分规模的分子程序验证上述方法；并在实际应用中测试开发的分子编程技术。这种高风险/高回报的研究将增加我们对计算与物理世界之间关系的理解，信息如何被分子存储和处理，以及计算和制造的可能性和限制。拓展活动包括夏季本科生和少数族裔学生研究奖学金、K-12访问日、新兵训练营、研讨会和许多其他努力，以创建一个更广泛的分子编程研究社区。

项目成果

A domain-level DNA strand displacement reaction enumerator allowing arbitrary non-pseudoknotted secondary structures

• DOI: 10.1098/rsif.2019.0866
• 发表时间: 2020-06-24
• 期刊: JOURNAL OF THE ROYAL SOCIETY INTERFACE
• 影响因子: 3.9
• 作者: Badelt, Stefan;Grun, Casey;Winfree, Erik
• 通讯作者: Winfree, Erik