Mardian Rizki, Sekiyama Kosuke, Fukuda Toshio
Department of Micro-Nano Systems Engineering, Nagoya University, Furo-cho, Chikusa, Nagoya, Japan.
Biosystems. 2013 Dec;114(3):245-52. doi: 10.1016/j.biosystems.2013.10.002. Epub 2013 Oct 21.
One biggest obstacle in molecular programming is that there is still no direct method to compile any existed mathematical model into biochemical reaction in order to solve a computational problem. In this paper, the implementation of DNA Strand Displacement system based on nature-inspired computation is observed. By using the Immune Network Theory and Chemical Reaction Network, the compilation of DNA-based operation is defined and the formulation of its mathematical model is derived. Furthermore, the implementation on this system is compared with the conventional implementation by using silicon-based programming. From the obtained results, we can see a positive correlation between both. One possible application from this DNA-based model is for a decision making scheme of intelligent computer or molecular robot.
分子编程中最大的障碍之一是，目前仍没有直接的方法将任何现有的数学模型编译成生化反应以解决计算问题。本文观察了基于自然启发计算的DNA链置换系统的实现。通过使用免疫网络理论和化学反应网络，定义了基于DNA的操作的编译，并推导了其数学模型的公式。此外，将该系统的实现与基于硅基编程的传统实现进行了比较。从获得的结果中，我们可以看到两者之间存在正相关关系。这种基于DNA的模型的一个可能应用是用于智能计算机或分子机器人的决策方案。
