Approach to Monte Carlo calculation of the buckling of supercoiled DNA loops

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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.
刊名	PHYSICAL REVIEW E
	2000
卷号	62 期号:5 页码:R5923-R5926
关键词	Phase-transitions Simulation Algorithm Ensemble Energy
ISSN号	1063-651X
英文摘要	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.
学科主题	Physics
URL标识	查看原文
WOS记录号	WOS:000165341700013
公开日期	2012-08-29
内容类型	期刊论文
源URL	[http://ir.itp.ac.cn/handle/311006/12885]
专题	理论物理研究所_理论物理所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.
推荐引用方式 GB/T 7714	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.