Simulation of DNA motion in a microchannel using stochastic rotation dynamics

Journal of Chemical Physics

Volumn 126, Issue 9, 2007, Pages

  Watari, Nobuhiko ^a,b   Makino, Masato ^a,b   Kikuchi, Norio ^c   Larson, Ronald G ^d   Doi, Masao ^a  

^a UNIVERSITY OF TOKYO   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^c MARTIN LUTHER UNIVERSITY HALLE WITTENBERG   (Germany)

^d UNIVERSITY OF MICHIGAN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

POISEUILLE FLOW; STOCHASTIC ROTATION DYNAMICS;

BOUNDARY CONDITIONS; COMPUTER SIMULATION; MICROCHANNELS; RANDOM PROCESSES;

DNA;

DNA;

CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER SIMULATION; REVIEW; STATISTICS; VALIDATION STUDY;

COMPUTER SIMULATION; DNA; MODELS, MOLECULAR; STOCHASTIC PROCESSES;

EID: 33847711496     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.2538831     Document Type: Article

References (20)

1. J. Hirabayashi, N. Ito, K. Noguchi, and K. Kasai, Biochemistry 29, 9515 (1990).
2. G. Stegeman, J. C. Kraak, and H. Poppe, J. Chromatogr., A 657, 283 (1993).
3. J. Han and H. G. Craighead, Science 288, 1026 (2000).
4. L. Fang, H. Hu, and R. G. Larson, J. Rheol. 49, 127 (2005).
5. B. H. Zimm, J. Chem. Phys. 24, 269 (1956).
6. M. Doi and S. F. Edwards, The Theory of Polymer Dynamics (Oxford University Press, Oxford, 1986).
7. D. L. Ermak and J. A. McCammon, J. Chem. Phys. 69, 1352 (1978).
8. R. M. Jendrejack, D. C. Schwartz, J. J. de Pablo, and M. D. Graham, J. Chem. Phys. 120, 2513 (2004).
9. A. Malevanets and R. Kapral, J. Chem. Phys. 110, 8605 (1999).
10. J. T. Padding and A. A. Louis, Phys. Rev. E 74, 031402 (2006).
11. N. Kikuchi, Ph.D. thesis, University of Oxford, 2003.
12. H. Noguchi and G. Gompper, Phys. Rev. E 72, 011901 (2005).
13. T. Ihle and D. M. Kroll, Phys. Rev. E 63, 020201 (2001).
14. N. Kikuchi, C. M. Pooley, J. F. Ryder, and J. M. Yeomans, J. Chem. Phys. 119, 6388 (2003).
15. M. Ripoll, K. Mussawisade, R. G. Winkler, and G. Gompper, Phys. Rev. E 72, 016701 (2005).
16. K. Mussawisade, M. Ripoll, R. G. Winkler, and G. Gompper, J. Chem. Phys. 123, 144905 (2005).
17. R. G. Larson, T. T. Perkins, D. E. Smith, and S. Chu, Phys. Rev. E 55, 1794 (1997).
18. J. F. Marko and E. D. Siggia, Macromolecules 28, 8759 (1995).
19. A. Lamura and G. Gompper, Eur. Phys. J. E 9, 477 (2002).
20. T. T. Perkins, D. E. Smith, and S. Chu, Science 276, 2016 (1997).