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Zhang, YL; Zheng, WM; Liu, JX; Chen, YZ; Zhang, YL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
Theory of DNA melting based on the Peyrard-Bishop model
Source PublicationPHYSICAL REVIEW E
KeywordStatistical-mechanics Nonlinear Model Thermal-denaturation Phase-transition Dynamics
AbstractThe DNA melting based on the Peyrard-Bishop (PB) model is systematically investigated. Our study on the eigenvalues and eigenvectors of the transfer integral equation for the original PB model points out that the eigenvectors are composed of two kinds: discrete bound states that constitute the internal states of a DNA molecule and the continuous unbound states that represent its dissociated states. Another process controlling the melting of DNA-the dissociation equilibrium between duplex and single-stranded DNAs-is introduced, which leads to an extended model applicable for a realistic DNA chain with a finite number of base pairs. Based on the expansion of kernels, the calculations of the thermodynamic quantities of the system are reduced to multiplication of matrix series. Calculations on model block DNAs show the method is much more efficient than molecular dynamic simulation and has enough high precision to handle the melting of a natural DNA with arbitrary sequence. The discreteness effect and nonlinear effect of the model are discussed based on the Gaussian model. Rigorous melting curves for periodic DNA with two and three base pairs in a unit cell and boundary effects are presented by the transfer integral approach.
1997
ISSN1063-651X
Volume56Issue:6Pages:7100-7115
Subject AreaPhysics
Indexed BySCI
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Document Type期刊论文
Identifierhttp://ir.itp.ac.cn/handle/311006/12403
Collection理论物理所科研产出_SCI论文
Corresponding AuthorZhang, YL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
Recommended Citation
GB/T 7714
Zhang, YL,Zheng, WM,Liu, JX,et al. Theory of DNA melting based on the Peyrard-Bishop model[J]. PHYSICAL REVIEW E,1997,56(6):7100-7115.
APA Zhang, YL,Zheng, WM,Liu, JX,Chen, YZ,&Zhang, YL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China..(1997).Theory of DNA melting based on the Peyrard-Bishop model.PHYSICAL REVIEW E,56(6),7100-7115.
MLA Zhang, YL,et al."Theory of DNA melting based on the Peyrard-Bishop model".PHYSICAL REVIEW E 56.6(1997):7100-7115.
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