Analysis and design of a single-molecule DNA nanodevice for thermal band-pass filters
Analysis and design of a single-molecule DNA nanodevice for thermal band-pass filters
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用于热带通滤波器的单分子 DNA 纳米器件的分析与设计
DOI：
10.1109/nems.2016.7758205
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发表时间：
2016
期刊：
影响因子：
--
通讯作者：
K. Komiya
中科院分区：
文献类型：
--
作者：
J. A. Rose;K. Komiya
我们以前提出，建模，并通过实验验证了一个温度敏感的单分子DNA纳米器件，通过竞争性折叠，作为一个潜在的平台，实现可调热带通滤波器。由于其独特的山形效率曲线，这明显不同于常见的S形熔融曲线观察到的孤立的DNA折叠，该装置可用于控制其他分子机器，因此代表了一个有前途的生物技术进步。初步模拟确定了调整设备以进行滤波器操作的基本可行性。然而，效率曲线的峰值温度、宽度和最大值对单个器件组件的能量稳定性的复杂依赖性的细节仍然不清楚，这是指导定向设计的重要信息。在这项工作中，一个精确的封闭形式的表达式预测的峰值温度推导和验证。然后利用该表达式的缩放行为来构建用于设计具有目标操作特性的器件实现的有效算法，从而建立定制器件设计的算法易处理性。然后，应用该算法来产生有针对性的滤波器设计，并对器件行为进行详细的模拟。最后讨论了系统模型在折叠误差估计中的应用。
We previously proposed, modeled, and experimentally validated a temperature-sensitive single-molecule DNA nanodevice that operates via competitive folding, as a potential platform for implementing a tunable thermal band-pass filter. Due to its peculiar hill-shaped efficiency profile, which differs markedly from the common sigmoidal melting curves observed for isolated DNA folding, this device could be used to control other molecular machines, and thus represents a promising biotechnological advance. Preliminary simulations established the basic feasibility of tuning the device for filter operation. However, the details of the complex dependencies of the peak temperature, width, and maximum value of the efficiency curve on the energetic stabilities of the individual device components, which is essential information for guiding directed design, remained unclear. In this work, an exact closed-form expression for predicting the peak temperature is derived and validated. The scaling behavior of this expression is then exploited to construct an effective algorithm for designing device implementations with target operating characteristics, thereby establishing the algorithmic tractability of tailored device design. This algorithm is then applied to produce a targeted filter design, with detailed simulations of device behavior. Finally, the application of the system model to folding error estimation is also discussed.
使用分子寻址的发夹 DNA 存储器
DOI：
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发表时间：
2006
期刊：
Small Vol.2
影响因子：
--
作者：
A. Kuniba;R. Sakamoto;R.Sakamoto;A.Kuniba;A.Kuniba;A.Kuniba;R. Sakamoto;R. Sakamoto;R. Sakamoto;Masahiro Takinoue;Tetsuro Kitajima;Masahiro Takinoue;Masahiro Takinoue;Masahito Takinoue;Masahito Takinoue
通讯作者：
Masahito Takinoue
统计热力学分析和基于 DNA 的计算机设计
DOI：
--
发表时间：
2004
期刊：
Natural Computing 3
影响因子：
--
作者：
J.A.Rose;R.J.Deaton;A.Suyama
通讯作者：
A.Suyama