Sampling the cell with anomalous diffusion - The discovery of slowness

Biophysical Journal

Volumn 94, Issue 1, 2008, Pages 90-94

  Guigas, Gernot ^a   Weiss, Matthias ^a  

^a GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSCRIPTION FACTOR;

ARTICLE; CELL STRUCTURE; COMPUTER SIMULATION; CYTOLOGY; DIFFUSION; DNA SEQUENCE; PARTICLE RESUSPENSION; PROTEIN STRUCTURE; PROTEIN TRANSPORT; SIGNAL TRANSDUCTION; VISCOELASTICITY;

RUMEX;

EID: 37749053173     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1529/biophysj.107.117044     Document Type: Article

References (26)

1. Turchin, P., and W. Thoeny. 1993. Quantifying dispersal of southern pine beetles with mark-recapture experiments and a diffusion model. Ecol. Appl. 3:187-198.
2. Hufnagel, L., D. Brockmann, and T. Geisel. 2004. Forecast and control of epidemics in a globalized world. Proc. Natl. Acad. Sci. USA. 101:15124-15129.
3. Bartumeus, F., J. Catalan, U. Fulco, M. Lyra, and G. Viswanathan. 2002. Optimizing the encounter rate in biological interactions: Levy versus Brownian strategies. Phys. Rev. Lett. 88:097901.
4. Brockmann, D., and T. Geisel. 2000. The ecology of gaze shifts. Neurocomputing. 32:643-650.
5. Metzler, R., and J. Klafter. 2004. The restaurant at the end of the random walk: recent developments in the description of anomalous transport by fractional dynamics. J. Phys. A Math. G E N. 37:R161-R208.
6. Weiss, M., and T. Nilsson. 2004. In a mirror dimly: tracing the movements of molecules in living cells. Trends Cell Biol. 14:267-273.
7. Weiss, M., M. Elsner, F. Kartberg, and T. Nilsson. 2004. Anomalous subdiffusion is a measure for cytoplasmic crowding in living cells. Biophys. J. 87:3518-3524.
8. Guigas, G., C. Kalla, and M. Weiss. 2007. Probing the nano-scale viscoelasticity of intracellular fluids in living cells. Biophys. J. 93:316-323.
9. Golding, I., and E. Cox. 2006. Physical nature of bacterial cytoplasm. Phys. Rev. Lett. 96:098102.
10. Berg, H. 1993. Random Walks in Biology. Princeton University Press, Princeton, NJ.
11. Berry, M. V., and Z. V. Lewis. 1980. On the Weierstrass-Mandelbrot fractal function. Proc. R. Soc. (Lond.) A. 370:459-484.
12. Saxton, M. 2001. Anomalous subdiffusion in fluorescence photo-bleaching recovery: a Monte Carlo study. Biophys. J. 81:2226-2240.
13. Elsner, M., H. Hashimoto, J. Simpson, D. Cassel, T. Nilsson, and M. Weiss. 2003. Spatiotemporal dynamics of the COPI vesicle machinery. EMBO Rep. 4:1000-1004.
14. Hofling, F., T. Franosch, and E. Frey. 2006. Localization transition of the three-dimensional Lorentz model and continuum percolation. Phys. Rev. Lett. 96:165901.
15. Saxton, M. 2007. A biological interpretation of transient anomalous subdiffusion. I. Qualitative model. Biophys. J. 92:1178-1191.
16. Mandelbrot, B. 1985. Self-affine fractals and fractal dimension. Phys. Scr. 32:257-260.
17. Qian, H. 2000. Single-particle tracking: Brownian dynamics of viscoelastic materials. Biophys. J. 79:137-143.
18. Banks, D., and C. Fradin. 2005. Anomalous diffusion of proteins due to molecular crowding. Biophys. J. 89:2960-2971.
19. Minton, A. 2006. How can biochemical reactions within cells differ from those in test tubes? J. Cell Sci. 119:2863-2869.
20. Saxton, M. 2002. Chemically limited reactions on a percolation cluster. J. Chem. Phys. 116:203-208.
21. Lomholt, M., I. Zaid, and R. Metzler. 2007. Subdiffusion and weak ergodicity breaking in the presence of a reactive boundary. Phys. Rev. Lett. 98:200603.
22. Wilson, C., H. Zhan, L. Swint-Kruse, and K. Matthews. 2007. The lactose repressor system: paradigms for regulation, allosteric behavior and protein folding. Cell. Mol. Life Sci. 64:3-16.
23. Duden, R. 2003. ER-to-Golgi transport: COPI and COPII function. Mol. Membr. Biol. 20:197-207.
24. Alon, U., L. Camarena, M. Surette, B. Aguera y Arcas, Y. Liu, S. Leibler, and J. Stock. 1998. Response regulator output in bacterial chemotaxis. EMBO J. 17:4238-4248.
25. Berg, O., and P. von Hippel. 1985. Diffusion-controlled macromolecular interactions. Annu. Rev. Biophys. Biophys. Chem. 14:131-160.
26. Falconer, K. 2003. Fractal Geometry: Mathematical Foundations and Applications. Wiley & Sons, New York.