Rings in random environments: sensing disorder through topology.
Rings in random environments: sensing disorder through topology.
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DOI：
10.1039/c4sm02324b
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发表时间：
2014-10
期刊：
影响因子：
3.4
通讯作者：
D. Michieletto;M. Baiesi;E. Orlandini;M. S. Turner
中科院分区：
文献类型：
--
作者：
D. Michieletto;M. Baiesi;E. Orlandini;M. S. Turner
本文通过分子动力学模拟研究了拓扑结构在DNA凝胶电泳实验中的作用。凝胶被建模为障碍物的3D阵列，其中半边缘以概率p随机移除，从而生成无序环境。通过测量移动通过介质的环状聚合物的电泳迁移率来捕获凝胶微观结构的变化，而它们的线性对应物提供了一个控制系统，因为我们表明它们对这些变化不敏感。我们表明，环状聚合物提供了一种新的，非侵入性的方式利用拓扑结构来感知微观无序。最后，我们将模拟结果与非平衡微分迁移率的分析模型进行了比较，发现模拟与理论之间有着惊人的一致性。
In this paper we study the role of topology in DNA gel electrophoresis experiments via molecular dynamics simulations. The gel is modelled as a 3D array of obstacles from which half edges are removed at random with probability p, thereby generating a disordered environment. Changes in the microscopic structure of the gel are captured by measuring the electrophoretic mobility of ring polymers moving through the medium, while their linear counterparts provide a control system as we show they are insensitive to these changes. We show that ring polymers provide a novel, non-invasive way of exploiting topology to sense microscopic disorder. Finally, we compare the results from the simulations with an analytical model for the non-equilibrium differential mobility, and find a striking agreement between simulation and theory.