Abstract
We use vibrated granular chain to simulate the long chain polymer, with the similarities in the monomer characteristics to the Monte Carlo methodology and in the statistical behaviors to the DNA molecules such as persistence length, radius of gyration, and so on. With the scaled apparatuses, we are able to investigate the kinetic mechanism the chain encountered by determining the statistical properties. The features of genome packaging and ejection during the transconduction, chromogenic electrophoresis through nano capillary, and coil-to-globule transitions are reproduced. Therefore the studies on the global manners of granular chains and their dependence on the experimental geometries contribute to the explanations on the biophysical phenomenon of DNA molecules. This visible simulation with single-chain experiment allows us to control the individual parameters precisely and determine the dominate factors that influence the dynamics. The mechanisms are beneficial to the fundamentals of future biochips applied for DNA computing with the sequencing in genetics, which could be the dominate contributions on disease prevention and medicine development.