Free energy landscape for the translocation of polymer through an interacting pore

Journal of Chemical Physics

Volumn 131, Issue 19, 2009, Pages

  Sun, Li Zhen ^a   Cao, Wei Ping ^a   Luo, Meng Bo ^a  

^a ZHEJIANG UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

EXACT ENUMERATION; FOKKER-PLANK EQUATION; FREE ENERGY LANDSCAPE; MIGRATION TIME; POLYMER CHAINS; POTENTIAL BARRIERS; POTENTIAL WELLS; REPULSIVE POLYMERS; TRANS SIDE;

FREE ENERGY;

POLYMERS;

EID: 70450265574     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.3264944     Document Type: Article

References (44)

1. B. Alberts and D. Bray, Molecular Biology of the Cell (Garland, New York, 1994).
2. M. Akeson, D. Branton, J. J. Kasinowicz, E. Brandin, and D. W. Deamer, Biophys. J. 0006-3495 77, 3227 (1999). 10.1016/S0006-3495(99)77153-5
3. V. R. Lingappa, J. Chaidez, C. S. Yost, and J. Hedgepeth, Proc. Natl. Acad. Sci. U.S.A. 0027-8424 81, 456 (1984). 10.1073/pnas.81.2.456
4. F. Tessier, J. Labrie, and G. W. Slater, Macromolecules 0024-9297 35, 4791 (2002). 10.1021/ma0110406 (Pubitemid 34630568)
5. Z. Chen and F. A. Escobedo, Mol. Simul. 0892-7022 29, 417 (2003). 10.1080/0892702031000117117 (Pubitemid 44124832)
6. B. H. Zimm and S. D. Levene, Q. Rev. Biophys. 0033-5835 25, 171 (1992). 10.1017/S0033583500004662
7. W. W. Yan, J. J. Kirkland, and D. D. Bly, Modern Size-Exclusion Liquid Chromatography (Wiley, New York, 1992).
8. J. J. Kasianowicz, E. Brandin, D. Branton, and D. W. Deamer, Proc. Natl. Acad. Sci. U.S.A. 0027-8424 93, 13770 (1996). 10.1073/pnas.93.24.13770 (Pubitemid 26424195)
9. W. Sung and P. J. Park, Phys. Rev. Lett. 0031-9007 77, 783 (1996). 10.1103/PhysRevLett.77.783
10. G. W. Slater, H. L. Guo, and G. I. Nixon, Phys. Rev. Lett. 0031-9007 78, 1170 (1997). 10.1103/PhysRevLett.78.1170
11. E. A. Dimarzio and A. L. Mandell, J. Chem. Phys. 0021-9606 107, 5510 (1997). 10.1063/1.474256
12. M. Muthukumar, J. Chem. Phys. 0021-9606 111, 10371 (1999). 10.1063/1.480386
13. D. K. Lubensky and D. R. Nelson, Biophys. J. 0006-3495 77, 1824 (1999). 10.1016/S0006-3495(99)77027-X
14. M. Muthukumar, Phys. Rev. Lett. 0031-9007 86, 3188 (2001). 10.1103/PhysRevLett.86.3188 (Pubitemid 32325517)
15. S. S. Chern, A. E. Ca'rdenas, and R. D. Coalson, J. Chem. Phys. 0021-9606 115, 7772 (2001). 10.1063/1.1392367 (Pubitemid 33047870)
16. Y. Lansac, P. K. Maiti, and M. A. Glaser, Polymer 0032-3861 45, 3099 (2004). 10.1016/j.polymer.2004.02.040 (Pubitemid 38429824)
17. M. B. Luo, Polymer 0032-3861 46, 5730 (2005). 10.1016/j.polymer.2005.05. 055 (Pubitemid 40831719)
18. Y. Shen and L. X. Zhang, Polymer 0032-3861 48, 3593 (2007). 10.1016/j.polymer.2007.04.052 (Pubitemid 46802677)
19. D. S. Wei, W. Yang, X. G. Jin, and Q. Liao, J. Chem. Phys. 0021-9606 126, 204901 (2007). 10.1063/1.2735627 (Pubitemid 46872205)
20. Y. D. He, H. J. Qian, Z. Y. Lu, and Z. S. Li, Polymer 0032-3861 48, 3601 (2007). 10.1016/j.polymer.2007.04.016 (Pubitemid 46802658)
21. S. Tsuchiya and A. Matsuyama, Phys. Rev. E 1063-651X 76, 011801 (2007). 10.1103/PhysRevE.76.011801 (Pubitemid 47146349)
22. P. J. Park and W. Sung, J. Chem. Phys. 0021-9606 111, 5259 (1999). 10.1063/1.479779
23. T. Ambjörnsson, S. P. Apell, Z. Konkoli, E. A. D. Marzio, and J. J. Kasianowicz, J. Chem. Phys. 0021-9606 117, 4063 (2002). 10.1063/1.1486208 (Pubitemid 34992690)
24. M. Muthukumar, J. Chem. Phys. 0021-9606 118, 5174 (2003). 10.1063/1.1553753
25. A. Gopinathan and Y. W. Kim, Phys. Rev. Lett. 0031-9007 99, 228106 (2007). 10.1103/PhysRevLett.99.228106 (Pubitemid 350198417)
26. Y. C. Chen, C. Wang, and M. B. Luo, J. Chem. Phys. 0021-9606 127, 044904 (2007). 10.1063/1.2757174 (Pubitemid 47192078)
27. P. Tian and G. D. Smith, J. Chem. Phys. 0021-9606 119, 11475 (2003). 10.1063/1.1621614
28. K. F. Luo, T. Ala-Nissila, S. C. Ying, and A. Bhattacharya, Phys. Rev. Lett. 0031-9007 99, 148102 (2007). 10.1103/PhysRevLett.99.148102 (Pubitemid 47519539)
29. M. B. Luo, Polymer 0032-3861 48, 7679 (2007). 10.1016/j.polymer.2007.10. 041 (Pubitemid 350192512)
30. K. F. Luo, T. Ala-Nissila, S. C. Ying, and A. Bhattacharya, Phys. Rev. Lett. 0031-9007 100, 058101 (2008). 10.1103/PhysRevLett.100.058101 (Pubitemid 351220690)
31. K. F. Luo, T. Ala-Nissila, S. C. Ying, and A. Bhattacharya, Phys. Rev. E 1063-651X 78, 061911 (2008). 10.1103/PhysRevE.78.061911
32. K. F. Luo, T. Ala-Nissila, S. C. Ying, and A. Bhattacharya, Phys. Rev. E 1063-651X 78, 061918 (2008). 10.1103/PhysRevE.78.061918
33. A. Milchev, K. Binder, and A. Bhattacharya, J. Chem. Phys. 0021-9606 121, 6042 (2004). 10.1063/1.1785776
34. A. Milchev and K. Binder, Comput. Phys. Commun. 0010-4655 169, 107 (2005). 10.1016/j.cpc.2005.03.025 (Pubitemid 40890588)
35. C. M. Chen, Physica A 0378-4371 350, 95 (2005). 10.1016/j.physa.2004.11. 026 (Pubitemid 40319719)
36. L. Z. Sun and M. B. Luo, Chin. Phys. Lett. 0256-307X 25, 4050 (2008). 10.1088/0256-307X/25/11/058
37. D. MacDonald, S. Joseph, D. L. Hunter, L. L. Moseley, N. Jan, and A. J. Guttmann, J. Phys. A 0305-4470 33, 5973 (2000). 10.1088/0305-4470/33/34/303
38. H. Meirovitch, Macromolecules 0024-9297 18, 563 (1985). 10.1021/ma00145a042
39. H. Meirovitch, Macromolecules 0024-9297 18, 569 (1985). 10.1021/ma00145a043
40. P. Grassberger, Phys. Rev. E 1063-651X 56, 3682 (1997). 10.1103/PhysRevE.56.3682
41. H. -P. Hsu and P. Grassberger, Eur. Phys. J. B 1434-6028 36, 209 (2003). 10.1140/epjb/e2003-00337-6 (Pubitemid 41200934)
42. A. Baumgärtner and M. Muthukumar, Adv. Chem. Phys. 0065-2385 94, 625 (1996). 10.1002/9780470141533.ch6
43. A. Baumgärtner and M. Muthukumar, J. Chem. Phys. 0021-9606 87, 3082 (1987). 10.1063/1.453045
44. S. F. Edwards and M. Muthukumar, J. Chem. Phys. 0021-9606 89, 2435 (1988). 10.1063/1.455038