Transition times in the low-noise limit of stochastic dynamics

Journal of Chemical Physics

Volumn 132, Issue 1, 2010, Pages

  Malinin, Sergey V ^a   Chernyak, Vladimir Y ^a  

^a WAYNE STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

LANGEVIN DYNAMICS; LIFE-TIMES; LOW NOISE; ONE-DIMENSIONAL PROBLEM; STOCHASTIC DYNAMICS; THIN TUBES; TRANSITION BARRIER; TRANSITION PATHS; TRANSITION TIME;

EID: 75749119330     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.3278440     Document Type: Article

References (64)

1. C. Gardiner, Handbook of Stochastic Methods for Physics, Chemistry and the Natural Sciences, 2nd ed. (Springer, New York, 1996).
2. P. Hänggi, P. Talkner, and M. Borkovec, Rev. Mod. Phys. RMPHAT 0034-6861 62, 251 (1990). 10.1103/RevModPhys.62.251
3. W. E. Moerner and M. Orrit, Science SCIEAS 0036-8075 283, 1670 (1999). 10.1126/science.283.5408.1670 (Pubitemid 29143792)
4. E. Barkai, Y. J. Jung, and R. Silbey, Annu. Rev. Phys. Chem. ARPLAP 0066-426X 55, 457 (2004). 10.1146/annurev.physchem.55.111803.143246
5. F. Ritort, J. Phys.: Condens. Matter JCOMEL 0953-8984 18, R531 (2006). 10.1088/0953-8984/18/32/R01 (Pubitemid 44159969)
6. D. J. Evans, E. G. D. Cohen, and G. P. Morris, Phys. Rev. Lett. PRLTAO 0031-9007 71, 2401 (1993). 10.1103/PhysRevLett.71.2401
7. G. Gallavotti and E. D. G. Cohen, J. Stat. Phys. JSTPBS 0022-4715 80, 931 (1995). 10.1007/BF02179860
8. C. Jarzynski, Phys. Rev. Lett. PRLTAO 0031-9007 78, 2690 (1997). 10.1103/PhysRevLett.78.2690
9. J. Kurchan, J. Phys. A JPHAC5 0305-4470 31, 3719 (1998). 10.1088/0305-4470/31/16/003 (Pubitemid 128059972)
10. J. L. Lebowitz and H. Spohn, J. Stat. Phys. JSTPBS 0022-4715 95, 333 (1999). 10.1023/A:1004589714161
11. G. Crooks, Phys. Rev. E PLEEE8 1063-651X 61, 2361 (2000). 10.1103/PhysRevE.61.2361
12. U. Seifert, Phys. Rev. Lett. PRLTAO 0031-9007 95, 040602 (2005). 10.1103/PhysRevLett.95.040602 (Pubitemid 41506195)
13. M. Chertkov, I. Kolokolov, V. Lebedev, and K. Turitsyn, J. Fluid Mech. JFLSA7 0022-1120 531, 251 (2005). 10.1017/S0022112005003939 (Pubitemid 40829989)
14. V. Chernyak, M. Chertkov, and C. Jarzynski, Phys. Rev. E PLEEE8 1063-651X 71, 025102 (2005). 10.1103/PhysRevE.71.025102 (Pubitemid 40607009)
15. V. Chernyak, M. Chertkov, and C. Jarzynski, J. Stat. Mech.: Theory Exp. 2006, P08001. 10.1088/1742-5468/2006/08/P08001 1742-5468
16. R. J. Harris and G. M. Schutz, J. Stat. Mech.: Theory Exp. 2007, P07020. 10.1088/1742-5468/2007/07/P07020
17. K. Turitsyn, M. Chertkov, V. Y. Chernyak, and A. Puliato, Phys. Rev. Lett. PRLTAO 0031-9007 98, 180603 (2007). 10.1103/PhysRevLett.98.180603 (Pubitemid 46701746)
18. D. G. Luchinsky, R. S. Maier, R. Mannella, P. V. E. McClintock, and D. L. Stein, Phys. Rev. Lett. PRLTAO 0031-9007 79, 3109 (1997). 10.1103/PhysRevLett. 79.3109
19. D. G. Luchinsky, P. V. E. McClintock, and M. I. Dykman, Rep. Prog. Phys. RPPHAG 0034-4885 61, 889 (1998). 10.1088/0034-4885/61/8/001
20. D. S. Talaga, W. L. Lau, H. Roder, J. Tang, Y. Jia, W. F. DeGrado, and R. M. Hochstrasser, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 97, 13021 (2000). 10.1073/pnas.97.24.13021
21. J. Hales, A. Zhukov, R. Roy, and M. I. Dykman, Phys. Rev. Lett. PRLTAO 0031-9007 85, 78 (2000). 10.1103/PhysRevLett.85.78 (Pubitemid 30895685)
22. J. S. Aldridge and A. N. Cleland, Phys. Rev. Lett. PRLTAO 0031-9007 94, 156403 (2005). 10.1103/PhysRevLett.94.156403
23. T. -H. Lee, L. J. Lapidus, W. Zhao, K. J. Travers, D. Herschlag, and S. Chu, Biophys. J. BIOJAU 0006-3495 92, 3275 (2007). 10.1529/biophysj.106.094623 (Pubitemid 46684586)
24. D. Nettels, I. V. Gopich, A. Hoffmann, and B. Schuler, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 104, 2655 (2007). 10.1073/pnas.0611093104 (Pubitemid 46327935)
25. H. B. Chan, M. I. Dykman, and C. Stambaugh, Phys. Rev. Lett. PRLTAO 0031-9007 100, 130602 (2008) 10.1103/PhysRevLett.100.130602; H. B. Chan, M. I. Dykman, and C. Stambaugh, Phys. Rev. E PLEEE8 1063-651X 78, 051109 (2008). 10.1103/PhysRevE.78.051109
26. B. Schuler and W. A. Eaton, Curr. Opin. Struct. Biol. COSBEF 0959-440X 18, 16 (2008). 10.1016/j.sbi.2007.12.003
27. H. S. Chung, J. M. Louis, and W. A. Eaton, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 106, 11837 (2009). 10.1073/pnas.0901178106
28. J. D. Eaves, J. J. Loparo, C. J. Fecko, S. T. Roberts, A. Tokmakoff, and P. L. Geissler, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 102, 13019 (2005). 10.1073/pnas.0505125102 (Pubitemid 41324971)
29. M. L. Cowan, B. D. Bruner, N. Huse, J. R. Dwyer, B. Chugh, E. T. J. Nibbering, T. Elsaesser, and R. J. D. Miller, Nature (London) NATUAS 0028-0836 434, 199 (2005). 10.1038/nature03383 (Pubitemid 40388046)
30. J. J. Loparo, S. T. Roberts, and A. Tokmakoff, J. Chem. Phys. JCPSA6 0021-9606 125, 194522 (2006). 10.1063/1.2382896 (Pubitemid 44867368)
31. C. Kolano, J. Helbing, M. Kozinski, W. Sander, and P. Hamm, Nature (London) NATUAS 0028-0836 444, 469 (2006). 10.1038/nature05352 (Pubitemid 44809061)
32. H. S. Chung, Z. Ganim, K. C. Jones, and A. Tokmakoff, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 104, 14237 (2007). 10.1073/pnas.0700959104 (Pubitemid 350003246)
33. R. M. Hochstrasser, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 104, 14190 (2007). 10.1073/pnas.0704079104 (Pubitemid 350003239)
34. S. Park, D. E. Moilanen, and M. D. Fayer, J. Phys. Chem. B JPCBFK 1089-5647 112, 5279 (2008). 10.1021/jp7121856
35. M. I. Dykman, P. V. McClintock, V. N. Smelyanski, N. D. Stein, and N. G. Stocks, Phys. Rev. Lett. PRLTAO 0031-9007 68, 2718 (1992). 10.1103/PhysRevLett. 68.2718
36. R. S. Maier and D. L. Stein, SIAM J. Appl. Math. SMJMAP 0036-1399 57, 752 (1997). 10.1137/S0036139994271753
37. D. K. Lubensky and D. R. Nelson, Biophys. J. BIOJAU 0006-3495 77, 1824 (1999). 10.1016/S0006-3495(99)77027-X
38. D. M. Zuckerman and T. B. Woolf, J. Chem. Phys. JCPSA6 0021-9606 116, 2586 (2002). 10.1063/1.1433501 (Pubitemid 34167996)
39. A. J. McKane and M. B. Tarlie, Phys. Rev. E PLEEE8 1063-651X 69, 041106 (2004). 10.1103/PhysRevE.69.041106
40. A. M. Berezhkovskii, G. Hummer, and S. M. Bezrukov, Phys. Rev. Lett. PRLTAO 0031-9007 97, 020601 (2006). 10.1103/PhysRevLett.97.020601 (Pubitemid 44050353)
41. B. W. Zhang, D. Jasnow, and D. M. Zuckerman, J. Chem. Phys. JCPSA6 0021-9606 126, 074504 (2007). 10.1063/1.2434966 (Pubitemid 46321413)
42. N. D. Socci, J. N. Onuchic, and P. G. Wolynes, J. Chem. Phys. JCPSA6 0021-9606 104, 5860 (1996). 10.1063/1.471317
43. D. K. Klimov and D. Thirumalai, Phys. Rev. Lett. PRLTAO 0031-9007 79, 317 (1997). 10.1103/PhysRevLett.79.317
44. G. Hummer, J. Chem. Phys. JCPSA6 0021-9606 120, 516 (2004). 10.1063/1.1630572
45. R. B. Best and G. Hummer, Phys. Rev. Lett. PRLTAO 0031-9007 96, 228104 (2006). 10.1103/PhysRevLett.96.228104 (Pubitemid 43855967)
46. B. Caroli, C. Caroli, B. Roulet, and J. F. Gouyet, J. Stat. Phys. JSTPBS 0022-4715 22, 515 (1980). 10.1007/BF01011336
47. S. Tnase-Nicola and J. Kurchan, J. Stat. Phys. JSTPBS 0022-4715 116, 1201 (2004). 10.1023/B:JOSS.0000041739.53068.6a (Pubitemid 41462036)
48. V. Y. Chernyak, M. Chertkov, S. V. Malinin, and R. Teodorescu, J. Stat. Phys. JSTPBS 0022-4715 137, 109 (2009). 10.1007/s10955-009-9832-z
49. L. Onsager and S. Machlup, Phys. Rev. PRVAAH 0096-8250 91, 1505 (1953). 10.1103/PhysRev.91.1505
50. K. L. C. Hunt and J. Ross, J. Chem. Phys. JCPSA6 0021-9606 75, 976 (1981). 10.1063/1.442098
51. R. P. Feynman and A. R. Hibbs, Quantum Mechanics and Path Integrals (McGraw-Hill, New York, 1965).
52. B. Caroli, C. Caroli, and B. Roulet, J. Stat. Phys. JSTPBS 0022-4715 26, 83 (1981). 10.1007/BF01106788
53. U. Weiss, Phys. Rev. A PLRAAN 1050-2947 25, 2444 (1982). 10.1103/PhysRevA.25.2444
54. R. Graham, Z. Phys. B ZPBBDJ 0340-224X 26, 281 (1977) 10.1007/BF01312935; R. Graham, Z. Phys. B ZPBBDJ 0340-224X 26, 397 (1977). 10.1007/BF01570750
55. R. Landauer and J. A. Swanson, Phys. Rev. PRVAAH 0096-8250 121, 1668 (1961). 10.1103/PhysRev.121.1668
56. B. Caroli, C. Caroli, and B. Roulet, J. Stat. Phys. JSTPBS 0022-4715 21, 415 (1979). 10.1007/BF01009609
57. R. S. Maier and D. L. Stein, Phys. Rev. E PLEEE8 1063-651X 48, 931 (1993). 10.1103/PhysRevE.48.931
58. M. I. Dykman, E. Mori, J. Ross, and P. M. Hunt, J. Chem. Phys. JCPSA6 0021-9606 100, 5735 (1994). 10.1063/1.467139
59. M. I. Dykman, D. G. Luchinsky, P. V. E. McClintock, and V. N. Smelyanskiy, J. Chem. Phys. JCPSA6 0021-9606 77, 5229 (1996).
60. H. Risken, The Fokker-Planck Equation (Springer, New York, 1989).
61. M. Suzuki, J. Stat. Phys. JSTPBS 0022-4715 16, 477 (1977). 10.1007/BF01152285
62. F. Paesani and G. A. Voth, J. Phys. Chem. B JPCBFK 1089-5647 113, 5702 (2009). 10.1021/jp810590c
63. E. Geva and J. L. Skinner, J. Phys. Chem. B JPCBFK 1089-5647 101, 8920 (1997). 10.1021/jp971722o
64. T. l. C. Jansen and J. Knoester, J. Chem. Phys. JCPSA6 0021-9606 127, 234502 (2007). 10.1063/1.2806179