First-passage-probability analysis of active transport in live cells

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics

Volumn 86, Issue 3, 2012, Pages

  Kenwright, David A ^a   Harrison, Andrew W ^a   Waigh, Thomas A ^a   Woodman, Philip G ^a   Allan, Victoria J ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVE PROCESS; ACTIVE TRANSPORT; CROSSING OVER; FIRST-PASSAGE TIME; FUNCTION OF TIME; GAUSSIAN PEAKS; HIGH SPEED MICROSCOPY; LIPID DROPLETS; LIVE CELL; LOG-NORMAL DISTRIBUTION; MEAN SQUARE DISPLACEMENT; MOTION OF INDIVIDUAL; MOTOR PROTEINS; POWER LAW DISTRIBUTION;

BALLISTICS; PROBABILITY DISTRIBUTIONS; TIME SWITCHES;

DROPS;

EID: 84866366078     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.86.031910     Document Type: Article

References (36)

1. B. Alberts, A. Johnson, J. Lewis, M. Raff, K. Roberts, and P. Walter, Molecular Biology of the Cell, 4th ed. (Garland Science, New York, 2002).
2. J. Howard, Mechanics of Motor Proteins and the Cytoskeleton (Sinauer Associates, Sunderland, MA, 2001).
3. D. Wirtz, Annu. Rev. Biophys. 1936-122X 10.1146/annurev.biophys.050708. 133724 38, 301 (2009).
4. N. Flores-Rodriguez, S. S. Rogers, D. A. Kenwright, T. A. Waigh, P. G. Woodman, and V. J. Allan, PLoS ONE 1932-6203 10.1371/journal.pone.0024479 6, e24479 (2011).
5. E. Sackmann, F. Keber, and D. Heinrich, in Annu. Rev. Condens. Matter Phys., edited by, J. Langer, (Annual Reviews, Palo Alto, California, USA, 2010), Vol. 1, pp. 257-276.
6. J.-H. Jeon, V. Tejedor, S. Burov, E. Barkai, C. Selhuber-Unkel, K. Berg-Sorensen, L. Oddershede, and R. Metzler, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.106.048103 106, 048103 (2011).
7. D. Arcizet, B. Meier, E. Sackmann, J. O. Rädler, and D. Heinrich, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.101.248103 101, 248103 (2008).
8. S. S. Rogers, N. Flores-Rodriguez, V. J. Allan, P. G. Woodman, and T. A. Waigh, Phys. Chem. Chem. Phys. PPCPFQ 1463-9076 10.1039/b921874b 12, 3753 (2010).
9. S. Redner, A Guide to First Passage Processes (Cambridge University Press, Cambridge, UK, 2001).
10. R. F. Fox and M. H. Choi, Phys. Rev. E PLEEE8 1539-3755 10.1103/PhysRevE.63.051901 63, 051901 (2001).
11. A. G. Hendricks, B. I. Epureanu, and E. Meyhöfer, Nonlinear Dynam. NODYES 0924-090X 10.1007/s11071-007-9315-1 53, 303 (2008).
12. L. Bruno, V. Levi, M. Brunstein, and M. A. Despósito, Phys. Rev. E PLEEE8 1539-3755 10.1103/PhysRevE.80.011912 80, 011912 (2009).
13. A. Caspi, R. Granek, and M. Elbaum, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.85.5655 85, 5655 (2000). (Pubitemid 32090288)
14. S. Condamin, O. Bénichou, V. Tejedor, R. Voituriez, and J. Klafter, Nature (London) NATUAS 0028-0836 10.1038/nature06201 450, 77 (2007). (Pubitemid 350070561)
15. S. Condamin, V. Tejedor, R. Voituriez, O. Bénichou, and J. Klafter, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.0712158105 105, 5675 (2008). (Pubitemid 351758430)
16. S. Reuveni, R. Granek, and J. Klafter, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.1002018107 107, 13696 (2010).
17. E. R. Weeks and D. A. Weitz, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.89.095704 89, 095704 (2002).
18. I. Y. Wong, M. L. Gardel, D. R. Reichman, E. R. Weeks, M. T. Valentine, A. R. Bausch, and D. A. Weitz, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.92.178101 92, 178101 (2004).
19. D. ben-Avraham and S. Havlin, Diffusion and Reactions in Fractals and Disordered Systems (Cambridge University Press, Cambridge, UK, 2000).
20. J.-H. Jeon and R. Metzler, Phys. Rev. E PLEEE8 1539-3755 10.1103/PhysRevE.81.021103 81, 021103 (2010).
21. S. S. Rogers, T. A. Waigh, X. Zhao, and J. R. Lu, Phys. Biol. 1478-3967 10.1088/1478-3975/4/3/008 4, 220 (2007). (Pubitemid 47568918)
22. M. A. Welte, Biochem. Soc. Trans. BCSTB5 0300-5127 10.1042/BST0370991 37, 991 (2009).
23. See Supplemental Material at http://link.aps.org/supplemental/10.1103/ PhysRevE.86.031910 for FPPs of individual epochs shown in Fig. , FPPs and MFPTs for diffusing latex spheres, and FPPs of additional tracks analyzed.
24. R. Metzler and J. Klafter, J. Phys. A 1361-6447 10.1088/0305-4470/37/31/ R01 37, R161 (2004). (Pubitemid 39063557)
25. B. Hughes, Random Walks and Random Environments. Volume 1: Random Walks (Oxford University Press, Oxford, United Kingdom, 1995).
26. B. Hughes, Random Walks and Random Environments. Volume 2: Random Environments (Oxford University Press, Oxford, United Kingdom, 1996).
27. J. Klafter and I. M. Sokolov, First Steps in Random Walks (Oxford University Press, Oxford, United Kingdom, 2011).
28. S. C. Lim and S. V. Muniandy, Phys. Rev. E PLEEE8 1539-3755 10.1103/PhysRevE.66.021114 66, 021114 (2002). (Pubitemid 40618637)
29. Y. Kantor and M. Kardar, Phys. Rev. E PLEEE8 1539-3755 10.1103/PhysRevE.76.061121 76, 061121 (2007).
30. D. O'Malley, J. H. Cushman, and G. Johnson, J. Stat. Mech. 1742-5468 10.1088/1742-5468/2011/01/L01001 (2011) L01001.
31. R. Metzler and J. Klafter, Phys. Rep. PRPLCM 0370-1573 10.1016/S0370-1573(00)00070-3 339, 1 (2000).
32. S. S. Rogers, T. A. Waigh, and J. R. Lu, Biophys. J. BIOJAU 0006-3495 10.1529/biophysj.107.123851 94, 3313 (2008).
33. M. A. Despósito, C. Pallavicini, V. Levi, and L. Bruno, Physica A PHYADX 0378-4371 10.1016/j.physa.2010.11.040 390, 1026 (2011).
34. M. Magdziarz, A. Weron, K. Burnecki, and J. Klafter, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.103.180602 103, 180602 (2009).
35. V. Tejedor, O. Bénichou, R. Voituriez, R. Jungmann, F. Simmel, C. Selhuber-Unkel, L. B. Oddershede, and R. Metzler, Biophys. J. BIOJAU 0006-3495 10.1016/j.bpj.2009.12.4282 98, 1364 (2010).
36. The matlab code for PolyParticleTracker and the first-passage-probability calculation may be found here: http://personalpages.manchester.ac.uk/staff/ david.kenwright/.