Optimizing periodicity and polymodality in noise-induced genetic oscillators

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

Volumn 83, Issue 6, 2011, Pages

  Rué, Pau ^a   Süel, Gürol M ^b   Garcia Ojalvo, Jordi ^a  

^a UNIVERSITAT POLITÈCNICA DE CATALUNYA   (Spain)

^b UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL PROCESS; CELL CYCLE; CELLULAR FUNCTION; COHERENCE RESONANCE; CYCLE LENGTH; GENETIC CIRCUITS; MODEL SYSTEM; MOLECULAR NOISE; MULTI-MODAL; NOISE LEVELS; OPTIMAL NOISE LEVEL; PERIODIC PROCESS; POLYMODAL DISTRIBUTION; REGULATORY MOTIFS; ROBUST GENERATION; STABILIZATION EFFECTS;

DISPLAY DEVICES; GENES; STABILIZATION;

OPTIMIZATION;

EID: 79961048094     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.83.061904     Document Type: Article

References (38)

1. J. J. Tyson, K. Chen, and B. Novak, Nat. Rev. Mol. Cell Biol. NRMCBP 1471-0072 10.1038/35103078 2, 908 (2001). (Pubitemid 33674090)
2. A. Goldbeter, Nature (London) NATUAS 0028-0836 10.1038/nature01259 420, 238 (2002). (Pubitemid 35340136)
3. B. Novák and J. J. Tyson, Nat. Rev. Mol. Cell Biol. NRMCBP 1471-0072 10.1038/nrm2530 9, 981 (2008).
4. D. Gonze, J. Halloy, and A. Goldbeter, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.022628299 99, 673 (2002). (Pubitemid 34106570)
5. R. R. Klevecz, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.73.11.4012 73, 4012 (1976).
6. A. Sveiczer, B. Novak, and J. M. Mitchison, J. Cell Sci. 109, 2947 (1996).
7. Y. Masui and P. Wang, Biol. Cell PNASA6 0248-4900 10.1016/S0248-4900(99) 80011-2 90, 537 (1998).
8. A. Sveiczer, A. Csikasz-Nagy, B. Gyorffy, J. J. Tyson, and B. Novak, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.97.14.7865 97, 7865 (2000). (Pubitemid 30460739)
9. B. Novak, Z. Pataki, A. Ciliberto, and J. J. Tyson, Chaos CHAOEH 1054-1500 10.1063/1.1345725 11, 277 (2001).
10. R. Steuer, J. Theor. Biol. JTBIAP 0022-5193 10.1016/j.jtbi.2004.01.012 228, 293 (2004). (Pubitemid 38591455)
11. J. E. Rose, J. F. Brugge, D. J. Anderson, and J. E. Hind, J. Neurophysiol. 30, 769 (1967).
12. A. Schimz and E. Hildebrand, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.89.2.457 89, 457 (1992).
13. M. Turcotte, J. Garcia-Ojalvo, and G. M. Süel, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.0806349105 105, 15732 (2008).
14. Hu Gang, T. Ditzinger, C. Z. Ning, and H. Haken, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.71.807 71, 807 (1993).
15. A. S. Pikovsky and J. Kurths, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.78.775 78, 775 (1997).
16. B. Lindner, J. García-Ojalvo, A. Neiman, and L. Schimansky-Geier, Phys. Rep. PRPLCM 0370-1573 10.1016/j.physrep.2003.10.015 392, 321 (2004). (Pubitemid 38231071)
17. G. M. Suel, R. P. Kulkarni, J. Dworkin, J. Garcia-Ojalvo, and M. B. Elowitz, Science SCIEAS 0036-8075 10.1126/science.1137455 315, 1716 (2007). (Pubitemid 46515626)
18. E. Fischer-Friedrich, G. Meacci, J. Lutkenhaus, H. Chaté, and K. Kruse, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.0911708107 107, 6134 (2010).
19. A. Pikovsky, A. Zaikin, and M. A. de la Casa, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.88.050601 88, 050601 (2002).
20. G. Schmid, I. Goychuk, and P. Hänggi, Europhys. Lett. EULEEJ 0295-5075 10.1209/epl/i2001-00482-6 56, 22 (2001).
21. R. Toral, C. R. Mirasso, and J. D. Gunton, Europhys. Lett. EULEEJ 0295-5075 10.1209/epl/i2003-00207-5 61, 162 (2003). (Pubitemid 36185147)
22. T. Y.-C. Tsai, Y. S. Choi, W. Ma, J. R. Pomerening, C. Tang, and J. E. Ferrell, Science SCIEAS 0036-8075 10.1126/science.1156951 321, 126 (2008). (Pubitemid 351956248)
23. J. Stricker, S. Cookson, M. R. Bennett, W. H. Mather, L. S. Tsimring, and J. Hasty, Nature (London) NATUAS 0028-0836 10.1038/nature07389 456, 516 (2008). (Pubitemid 352759003)
24. M. Tigges, T. T. Marquez-Lago, J. Stelling, and M. Fussenegger, Nature (London) NATUAS 0028-0836 10.1038/nature07616 457, 309 (2009).
25. G. Süel, J. Garcia-Ojalvo, L. Liberman, and M. Elowitz, Nature (London) NATUAS 0028-0836 10.1038/nature04588 440, 545 (2006).
26. T. Çaǧatay, M. Turcotte, M. B. Elowitz, J. Garcia-Ojalvo, and G. Süel, Cell CELLB5 0092-8674 10.1016/j.cell.2009.07.046 139, 512 (2009).
27. D. T. Gillespie, J. Phys. Chem. JPCHAX 0022-3654 10.1021/j100540a008 81, 2340 (1977).
28. U. Alon, An Introduction to Systems Biology (Chapman and Hall/CRC, London, 2006).
29. E. M. Izhikevich, Dynamical Systems in Neuroscience: The Geometry of Excitability and Bursting (MIT, Cambridge, MA, 2006).
30. P. Rué and J. Garcia-Ojalvo, Math. Biosci. MABIAR 0025-5564 10.1016/j.mbs.2011.02.013 231, 90 (2011).
31. Y. Taniguchi, P. J. Choi, G.-W. Li, H. Chen, M. Babu, J. Hearn, A. Emili, and X. S. Xie, Science SCIEAS 0036-8075 10.1126/science.1188308 329, 533 (2010).
32. F. Sagués, J. M. Sancho, and J. García-Ojalvo, Rev. Mod. Phys. RMPHAT 0034-6861 10.1103/RevModPhys.79.829 79, 829 (2007). (Pubitemid 47117062)
33. A. J. McKane and T. J. Newman, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.94.218102 94, 218102 (2005). (Pubitemid 41636711)
34. D. Alonso, A. J. McKane, and M. Pascual, J. R. Soc. Interface PRLTAO 1742-5689 10.1098/rsif.2006.0192 4, 575 (2007). (Pubitemid 46846685)
35. A. Eldar and M. B. Elowitz, Nature (London) NATUAS 0028-0836 10.1038/nature09326 467, 167 (2010).
36. M. Kittisopikul and G. M. Süel, Proc. Natl. Acad. Sci. USA PNASA6 0027-8424 10.1073/pnas.1003975107 107, 13300 (2010).
37. E. I. Volkov, M. N. Stolyarov, A. A. Zaikin, and J. Kurths, Phys. Rev. E PNASA6 1539-3755 10.1103/PhysRevE.67.066202 67, 66202 (2003).
38. A. Koseska, E. Volkov, A. Zaikin, and J. Kurths, Phys. Rev. E PNASA6 1539-3755 10.1103/PhysRevE.76.020901 76, 020901 (2007). (Pubitemid 47330028)