基于DNA链置换的动态DNA自组装控制机理研究

Recent studies show that the complex reaction networks constructed by DNA strand displacements have the logical functions, which provides an alternative way of realizing the dynamic controllable DNA self-assembly. The dynamic mechanisms of the spatial and temporal controllable DNA self-assembly will be studied in this project. The main research topics of this project are as follows: Constructing the DNA sub-tile assembly model by model design, simulation and experiment procedures based on nucleic acid package; Constructing DNA tiles by programmable and stepwise approach based on the DNA sub-tile model and DNA strand displacement; Designing spatially addressable DNA self-assembly structure by using bottom-up approach based on Wang tiles theory and tile assembly model; Designing the programming spatial and temporal catalytic circuits, and realizing the accurate spatial and temporal control of DNA self-assembly based on the theories of complex networks and engineering controls. Further understand the kinetic basis and its growth mechanism of DNA self-assembly through systematic studying the algorithms, data, models, simulations and experiments. This project will provide not only the new methods of modeling and analysis for dynamic DNA self-assembly, but also new ideas and theoretical supports for DNA self-assembly applications.

研究表明，基于DNA链置换所构造的复杂反应网络具有逻辑运算功能，这为实现动态可控的DNA自组装提供了可能。本项目拟开展时空可控DNA自组装动力学控制机理研究。研究内容主要包括：基于NUPACK工具包，通过设计、仿真和实验，建立和完善DNA Sub-tile模型；基于Sub-tile模型和DNA链置换，设计时序催化电路，可编程分步构建DNA Tiles；基于Wang Tiles理论和Tile自组装模型，自底向上地设计空间可寻址的DNA自组装结构体；基于复杂网络和工程控制论的理论与方法，设计可编程时空催化控制电路，自顶向下地实现DNA自组装体的精确时空控制。通过对算法、数据、模型、仿真和实验的系统研究，深入理解时空可控的DNA自组装体的动力学基础及其组装生长机理。本项目的研究将为动态DNA自组装的建模和分析提供新方法，也为DNA自组装相关应用领域提供新思路和理论支撑。

本项目开展了时空可控DNA自组装动力学控制机理研究。研究内容包括：基于NUPACK工具包，通过设计、仿真和实验，建立和完善DNA Sub-tile模型；基于Sub-tile模型和DNA链置换，设计时序催化电路，可编程分步构建DNA Tiles；基于Wang Tiles理论和Tile自组装模型，自底向上地设计空间可寻址的DNA自组装结构体；基于复杂网络和工程控制论的理论与方法，设计了可编程时空催化控制电路，自顶向下地实现DNA自组装体的精确时空控制。通过对算法、数据、模型、仿真和实验的系统研究，深入理解了时空可控的DNA自组装体的动力学基础及其组装生长机理。本项目的研究为动态DNA自组装的建模和分析提供新方法，也为DNA自组装相关应用领域提供新思路和理论支撑。. 研究成果获河南省科技进步三等奖1项，获河南省自然科学优秀论文将二等奖1项，河南省教育厅科技成果一等奖4项，河南省教育厅科技成果二等奖1项；通过科技成果评价5项，达到国际先进水平；发表学术论文32篇，其中SCI\EI收录28篇；申请发明专利18项，授权发明专利12项；登记软件著作权10项。