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The Application of DNA Normal Mode Analysis in Nano Fabrication Technology

Author: QianPengFei
Tutor: ChengGuangMing
School: Jilin University
Course: Mechanical and Electronic Engineering
Keywords: Intrinsic modal analysis Elastic network model Robot kinematics Nanomanufacturing DNA tiles
CLC: TB383.1
Type: Master's thesis
Year: 2011
Downloads: 33
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Abstract

Nanotechnology as one of the most important cutting-edge technology of the 21st century, has been on people's production and life had a profound impact. Based on the basic pieces of DNA nanotechnology (DNA tiles), the \chip, multi-level, large-scale nano-assembly, the technology has aroused extensive attention of scholars at home and abroad. However, the existing experimental phenomenon, but many have not yet explained the subject, the representative have two questions: 1. Structure similar tiles Why would generate different sizes nanofilm; 2 two-dimensional cross-type tiles Why capable of forming a three-dimensional nano-tubes. In order to explain these two issues, the inherent modal analysis of DNA nano-assembly, focusing on the natural frequency corresponds to the low frequency region and the intrinsic mode, and get a lot of meaningful conclusions. The main research work are as follows: 1. Identify research ideas through access to information at home and abroad, the first analysis of a wide range of applications of the \And then another study the intrinsic modal analysis as a common simulation tools have been widely used in the field of bio-nano, including genetic engineering, protein allosteric drug screening as well as research and development of new drugs, to cope with the conduct of the trial. This article will the inherent modal analysis method first used in DNA nanotechnology manufacturing field. Tile structure of minimum energy state the inherent modal analysis of potential items for the classical harmonic potential. In the field of nanotechnology, and only in the molecular structure of small deformation assumptions to the potential energy between atoms is approximately harmonic potential energy. So, it must be before intrinsic modal analysis, given the tile structure adjusted to the minimum energy state. Large number of documents have been recorded in the average of the geometric parameters of the DNA in the equilibrium state, this paper derived based on the the robot kinematics theory of structural adjustment programs. The adjusted structure from many aspects consistent with the test results to verify the effectiveness of the adjustment program. Elastic network model for the nanostructure in the minimum energy state, its elastic network modeling. Inherent modal analysis aimed at a relatively slow overall movement, rather than a very short time the local Brownian motion. Therefore, this paper uses the computational efficiency of coarse particles elastic network model. Vibration model based, through the establishment of a large number of coarse particle mass matrix and the potential energy matrix, and finally derive the overall kinetic equation. By solving this equation, we can get the eigenvalues ??and eigenvectors of the stiffness matrix, thus intrinsic mode simulation and analysis. . The linear tiles inherent modal analysis of linear tiles as the most basic form of DNA tiles, in the field of nano-manufacturing has a relatively mature application. However, the conventional test, different nucleotide sequence in the same structural form tiles generated nano thin film, has a significant difference in area. Through the same form the base sequence of the two types of conjoined inherent modal analysis, natural frequency there is a clear difference in the premise very close to the quality of this differences reflect differences in the two types of diad stiffness, the ultimate impact of the difference of their own ability to adjust the tile self-assembly works. 5. The cross tiles inherent modal analysis for cross-type tile monomer and quadruplex intrinsic mode analysis of the intrinsic mode corresponding to the lowest frequency bending mode. More convincing, through several quadruplexes modal shape of linear accumulation, it is possible to explain the the cyclized effect of the nanotubes. In short, these low-frequency intrinsic mode at the structural level, the formation mechanism of the nanotubes provide the most reasonable explanation.

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