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Approach to Monte Carlo calculation of the buckling of supercoiled DNA loops
Zhang, Y; Zhang, Y , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
2000
发表期刊PHYSICAL REVIEW E
ISSN1063-651X
卷号62期号:5页码:R5923-R5926
摘要The short supercoiled circular DNA molecules are shown to be glassy systems and canonical Metropolis Monte Carlo simulations of the systems tend to get stuck in local metastable energy basins. A Monte Carlo algorithm is developed to alleviate the problem of "ergodicity breaking'' of the glassy systems, in which the Markov process is driven by an explicitly analytic weight factor with enhanced probability in both low- and high-energy regions. To characterize the degree of puckering of the supercoiled DNA loops, a different quantity of aplanarity is introduced as the shortest principal axis of configurational ellipsoid of DNA. With the suggested Monte Carlo method, the quantitative correlation between supercoiling degree and buckling of DNA is attained. With supercoiling stress increasing, the conformational transition from a circle to mono-, diplo-, or triple interwound superhelical structure will take place in a successive but decreasingly abrupt mode.
部门归属Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China
关键词Phase-transitions Simulation Algorithm Ensemble Energy
学科领域Physics
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收录类别SCI
WOS记录号WOS:000165341700013
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被引频次:3[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/12885
专题1978-2010年知识产出
通讯作者Zhang, Y , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
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Zhang, Y,Zhang, Y , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.. Approach to Monte Carlo calculation of the buckling of supercoiled DNA loops[J]. PHYSICAL REVIEW E,2000,62(5):R5923-R5926.
APA Zhang, Y,&Zhang, Y , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China..(2000).Approach to Monte Carlo calculation of the buckling of supercoiled DNA loops.PHYSICAL REVIEW E,62(5),R5923-R5926.
MLA Zhang, Y,et al."Approach to Monte Carlo calculation of the buckling of supercoiled DNA loops".PHYSICAL REVIEW E 62.5(2000):R5923-R5926.
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