Extrinsic vs. intrinsic noises in phage lambda genetic switch

2011 IEEE International Conference on Systems Biology, ISB 2011

Volumn , Issue , 2011, Pages 67-71

  Tian, Wei ^a   Zhu, Hongyuan ^a   Lei, Xue ^a   Ao, Ping ^a  

^a Chinese National Human Genome Center at Shanghai   (China)

Author keywords

extrinsic noise; intrinsic noise; lysogeny; phage lambda; stochasticity

Indexed keywords

BIOLOGICAL MODELING; EXPERIMENT DATA; EXTRINSIC NOISE; INTRINSIC NOISE; LYSOGENY; MATHEMATICAL MODELING; MODEL ORGANISMS; STOCHASTICITY; THEORETICAL RESULT;

BACTERIOPHAGES; MATHEMATICAL MODELS;

BIOLOGY;

EID: 80054870128     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ISB.2011.6033122     Document Type: Conference Paper

References (19)

1. A. Arkin, J. Ross, and H. McAdams, "Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected escherichia coli cells", Genetics, vol. 149, no. 4, p. 1633, 1998.
2. W. Blake, M. Kærn, C. Cantor, and J. Collins, "Noise in eukaryotic gene expression", Nature, vol. 422, no. 6932, pp. 633-637, 2003.
3. H. Maamar, A. Raj, and D. Dubnau, "Noise in gene expression determines cell fate in bacillus subtilis", Science, vol. 317, no. 5837, p. 526, 2007.
4. M. Ptashne, A genetic switch: phage lambda revisited. Cold Spring Harbor Laboratory Pr, 2004.
5. E. Davidson, J. Rast, P. Oliveri, A. Ransick, C. Calestani, C. Yuh, T. Minokawa, G. Amore, V. Hinman, C. Arenas-Mena, O. Otim, C. Brown, C. Livi, P. Lee, R. Revilla, A. Rust, Z. Pan, M. Schilstra, P. Clarke, M. Arnone, L. Rowen, R. Cameron, D. McClay, L. Hood, and H. Bolouri, "A genomic regulatory network for development", Science, vol. 295, p. 1669, 2002.
6. F. St-Pierre and D. Endy, "Determination of cell fate selection during phage lambda infection", Proceedings of the National Academy of Sciences, vol. 105, no. 52, p. 20705, 2008.
7. * 1:: A physical-chemical model for gene regulation", Journal of molecular biology, vol. 181, no. 2, pp. 211-230, 1985.
8. X. Zhu, L. Yin, L. Hood, and P. Ao, "Robustness, stability and efficiency of phage lambda genetic switch: dynamical structure analysis", J Bioinform Comput Biol, vol. 2, no. 4, pp. 785-817, 2004.
9. D. Volfson, J. Marciniak, W. Blake, N. Ostroff, L. Tsimring, and J. Hasty, "Origins of extrinsic variability in eukaryotic gene expression", Nature, vol. 439, no. 7078, pp. 861-864, 2005.
10. S. Tsuru, J. Ichinose, A. Kashiwagi, B. Ying, K. Kaneko, and T. Yomo, "Noisy cell growth rate leads to fluctuating protein concentration in bacteria", Physical Biology, vol. 6(3), p. 036015, 2009.
11. M. Elowitz, A. Levine, E. Siggia, and P. Swain, "Stochastic gene expression in a single cell", Science, vol. 297, no. 5584, p. 1183, 2002.
12. J. Liang and H. Qian, "Computational cellular dynamics based on the chemical master equation: a challenge for understanding complexity", Journal of computer science and technology, vol. 25, p. 154, 2010.
13. Y. Cao, H. Lu, and J. Liang, "Probability landscape of heritable and robust epigenetic state of lysogeny in phage lambda", Proceedings of the National Academy of Sciences, vol. 107, p. 18445, 2010.
14. D. Gillespie, "The chemical langevin equation", The Journal of Chemical Physics, vol. 113, p. 297, 2000.
15. L. Anderson and H. Yang, "Dna looping can enhance lysogenic ci transcription in phage lambda", Proceedings of the National Academy of Sciences, vol. 105, no. 15, p. 5827, 2008.
16. E. Aurell and K. Sneppen, "Epigenetics as a first exit problem", Physical review letters, vol. 88, no. 4, p. 48101, 2002.
17. X. Zhu, L. Yin, L. Hood, D. Galas, and P. Ao, "Efficiency, robustness, and stochasticity of gene regulatory networks in systems biology: λ switch as a working example", Introduction to Systems Biology, pp. 336-371, 2007.
18. P. Ao, "Potential in stochastic differential equations: novel construction", Journal of Physics A: Mathematical and General, vol. 37, p. L25, 2004.
19. M. Avlund, I. Dodd, S. Semsey, K. Sneppen, and S. Krishna, "Why do phage play dice" Journal of virology, vol. 83, no. 22, p. 11416, 2009.