Design of Code Words for DNA Computers and Nanostructures with Consideration of Hybridization Kinetics
Design of Code Words for DNA Computers and Nanostructures with Consideration of Hybridization Kinetics
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DOI：
10.1007/978-3-540-77962-9_12
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发表时间：
2007-06
期刊：
影响因子：
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通讯作者：
Tetsuro Kitajima;M. Takinoue;K. Shohda;A. Suyama
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文献类型：
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作者：
Tetsuro Kitajima;M. Takinoue;K. Shohda;A. Suyama
我们开发了一种设计快速杂交正交 DNA 序列的方法。预测方法中使用了两种条件。一个条件涉及正向链和反向链的自折叠二级结构的稳定性。另一个条件涉及互补链在其自折叠二级结构尾部的成核能力。这些条件源自互补链实验确定的杂交率对其稳定性和成核能力的依赖。对从我们的 300 个正交 DNA 序列集中随机选择的 37 个正交 DNA 序列检查了这些依赖性。通过将这种新方法应用于 300 个正交 DNA 序列集，获得了 100 多个快速杂交序列。
We have developed a method for designing rapidly-hybridizing orthonormal DNA sequences. Two conditions were used in the prediction method. One condition concerned the stability of the self-folded secondary structures of forward and reverse strands. The other condition concerned the nucleation capability of complementary strands at the tails of their self-folded secondary structures. These conditions were derived from the complementary strands’ experimentally-determined hybridization rates’ dependence on their stability and nucleation capability. These dependences were examined for 37 orthonormal DNA sequences randomly selected from our set of 300 orthonormal DNA sequences. By applying this new method to the set of 300 orthonormal DNA sequences, more than 100 rapidly-hybridizing sequences were obtained.