Two-angle model and phase diagram for chromatin

被引:10
作者
Diesinger, Philipp M.
Heermann, Dieter W.
机构
[1] Heidelberg Univ, Inst Theoret Phys, D-69120 Heidelberg, Germany
[2] Heidelberg Univ, Interdisziplinares Zentrum Wissensch Rechnen, Heidelberg, Germany
来源
PHYSICAL REVIEW E | 2006年 / 74卷 / 03期
关键词
BROWNIAN DYNAMICS SIMULATION; MONTE-CARLO SIMULATIONS; DOUBLE-STRANDED DNA; NEUTRON-SCATTERING; SUPERCOILED DNAS; NUCLEOSOME; MICROSCOPY; ORGANIZATION; COMPACTION; FILAMENT;
D O I
10.1103/PhysRevE.74.031904
中图分类号
O35 [流体力学]; O53 [等离子体物理学];
学科分类号
070204 ; 080103 ; 080704 ;
摘要
We have studied the phase diagram for chromatin within the framework of the two-angle model. Only a rough estimation of the forbidden surface of the phase diagram for chromatin was given in a previous work of Schiessel. We revealed the fine structure of this excluded-volume borderline numerically and analytically. Furthermore, we investigated the Coulomb repulsion of the DNA linkers to compare it with the previous results.
引用
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页数:8
相关论文
共 31 条
[1]   TRANSPORT-PROPERTIES OF RIGID AND FLEXIBLE MACROMOLECULES BY BROWNIAN DYNAMICS SIMULATION [J].
ALLISON, SA ;
MCCAMMON, JA .
BIOPOLYMERS, 1984, 23 (01) :167-187
[2]   How the chromatin fiber deals with topological constraints [J].
Barbi, M ;
Mozziconacci, J ;
Victor, JM .
PHYSICAL REVIEW E, 2005, 71 (03)
[3]   Nucleosomes, linker DNA, and linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin [J].
Bednar, J ;
Horowitz, RA ;
Grigoryev, SA ;
Carruthers, LM ;
Hansen, JC ;
Koster, AJ ;
Woodcock, CL .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (24) :14173-14178
[4]   CHROMATIN CONFORMATION AND SALT-INDUCED COMPACTION - 3-DIMENSIONAL STRUCTURAL INFORMATION FROM CRYOELECTRON MICROSCOPY [J].
BEDNAR, J ;
HOROWITZ, RA ;
DUBOCHET, J ;
WOODCOCK, CL .
JOURNAL OF CELL BIOLOGY, 1995, 131 (06) :1365-1376
[5]  
Delrow JJ, 1997, BIOPOLYMERS, V42, P455, DOI 10.1002/(SICI)1097-0282(19971005)42:4<455::AID-BIP8>3.0.CO
[6]  
2-P
[7]   Nucleosome arrays reveal the two-start organization of the chromatin fiber [J].
Dorigo, B ;
Schalch, T ;
Kulangara, A ;
Duda, S ;
Schroeder, RR ;
Richmond, TJ .
SCIENCE, 2004, 306 (5701) :1571-1573
[8]   SOLENOIDAL MODEL FOR SUPERSTRUCTURE IN CHROMATIN [J].
FINCH, JT ;
KLUG, A .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1976, 73 (06) :1897-1901
[9]   Monte Carlo simulations of supercoiled DNAs confined to a plane [J].
Fujimoto, BS ;
Schurr, JM .
BIOPHYSICAL JOURNAL, 2002, 82 (02) :944-962
[10]   CHROMATIN HIGHER-ORDER STRUCTURE STUDIED BY NEUTRON-SCATTERING AND SCANNING-TRANSMISSION ELECTRON-MICROSCOPY [J].
GERCHMAN, SE ;
RAMAKRISHNAN, V .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1987, 84 (22) :7802-7806