E. Ozbudak, M. Thattai, I. Kurtser, A. Grossman, and A. Van-oudenaarden, Regulation of noise in the expression of a single gene, Nat Genet, vol.31, pp.69-73, 2002.

F. Isaacs, J. Hasty, C. R. Cantor, and J. J. Collins, Prediction of measurement of an autoregulatory genetic module, Proc Natl Acad Sci U S A, vol.100, pp.7714-7719, 2003.

M. Elowitz, A. Levine, E. Siggia, and P. Swain, Stochastic gene expression in a single cell, Science, vol.297, pp.1183-1186, 2002.

W. Blake, M. Kaern, C. Cantor, and J. Collins, Noise in eukaryotic gene expression, Nature, vol.422, pp.633-637, 2003.

R. Thornhill and A. Moller, Developmental stability, disease and medicine, Biol Rev Camb Philos Soc, vol.72, pp.497-548, 1997.

H. H. Mcadams and A. Arkin, It's a noisy business! Genetic regulation at the nanomolar scale, Trends Genetics, vol.15, pp.65-69, 1999.

G. Von-dassow, M. E. Munro, E. Odell, and G. , The segment polarity network is a robust development module, Nature, vol.406, pp.188-192, 2000.

U. Alon, M. G. Surette, N. Barkai, and S. Leibler, Robustness in bacterial chemotaxis, Nature, vol.397, pp.168-171, 1999.

N. T. Ingolia, Topology and robustness in the Drosophila segment polarity network, Plos Biol, vol.2, issue.6, pp.805-815, 2004.

C. Espinosa-soto, P. Padilla-longoria, and E. R. Alvarez-buylla, A gene regulatory network model for cell-fate determination during Arabidopsis thalianal flower development that is robust and recovers experimental gene expression profiles, Plant Cell, vol.16, pp.2923-2939, 2004.

J. Stelling, E. D. Gilles, and F. J. Doyle, Robustness properties of circadian clock architectures, Proc Natl Acad Sci U S A, vol.101, pp.13210-13215, 2004.

D. Gonze, J. Halloy, and A. Goldbeter, Robustness of circadian rhythms with respect to molecular noise, Proc Natl Acad Sci U S A, vol.99, pp.673-678, 2002.

M. Freeman, Feedback control of intercellular signalling in development, Nature, vol.408, pp.313-319, 2000.

M. Morohashi, A. E. Winn, M. T. Borisuk, H. Bolouri, and J. Doyle, Robustness as a measure of plausibility in models of biochemical networks, J Theor Biol, vol.216, pp.19-30, 2002.

J. S. Edwards and B. O. Palsson, Robustness analysis of the Escherichia coli metabolic network, Biotechnol Prog, vol.16, pp.927-939, 2000.

A. Eldar, R. Dorfman, D. Weiss, H. Ashe, and B. Shilo, Robustness of the BMP morphogen gradient in Drosophila embryonic patterning, Nature, vol.419, pp.304-308, 2002.

J. C. Leloup and A. Goldbeter, Modeling the mammalian circadian clock: Sensitivity analysis and multiplicity of oscillatory mechanisms, J Theor Biol, vol.230, pp.541-562, 2004.

H. R. Ueda, M. Hagiwara, and H. Kitano, Robust oscillations within the interlocked feedback model of Drosophila circadian rhythm, J Theor Biol, vol.210, pp.401-406, 2001.

P. Smolen, D. A. Baxter, and J. H. Byrne, Modeling circadian oscillations with interlocking positive and negative feedback loops, J Neurosci, vol.21, pp.6644-6656, 2001.

J. J. Tyson, C. I. Hong, C. D. Thron, and B. Novak, A simple model of circadian rhythms based on dimerization and proteolysis of PER and TIM, Biophys J, vol.77, pp.2411-2417, 1999.

P. Ruoff, M. Vinsjevik, C. Monnerjahn, and L. Rensing, The Goodwin model: Simulating the effect of light pulses on the circadian sporulation rhythm of Neurospora Crassa, J Theor Biol, vol.209, pp.29-42, 2001.

J. C. Leloup, D. Gonze, and A. Goldbeter, Limit cycle models for circadian rhythms based on transcriptional regulation in Drosophila and Neurospora, J Biol Rhythms, vol.14, pp.433-448, 1999.

A. Goldbeter, A model for circadian oscillations in the Drosophila period (per) protein, Proc R Soc Lond B Biol Sci, vol.261, pp.319-324, 1995.

D. B. Forger and C. S. Peskin, A detailed predictive model of the mammalian circadian clock, Proc Natl Acad Sci U S A, vol.100, pp.14806-14811, 2003.

N. Barkai and S. Leibler, Biological rhythms-Circadian clocks limited by noise, Nature, vol.403, pp.267-268, 2000.

F. T. Li, T. Long, Y. Lu, Q. Ouyang, and C. Tang, The yeast cell-cycle network is robustly designed, Proc Natl Acad Sci U S A, vol.101, pp.4781-4786, 2004.

J. Jaeger, S. Surkova, M. Blagov, H. Janssens, and D. Kosman, Dynamic control of positional information in the early Drosophila embryo, Nature, vol.430, pp.368-371, 2004.

A. Raya, Y. Kawakami, C. Rodriguez-esteban, M. Ibanes, and D. Rasskin-gutman, Notch activity acts as a sensor for extracellular calcium during vertebrate left-right determination, Nature, vol.427, pp.121-128, 2004.

M. E. Von-dassow, G. Munro, E. Odell, and G. , Robustness, flexibility, and the role of lateral inhibition in the neurogenic network, Curr Biol, vol.12, pp.778-786, 2002.

R. Albert and H. G. Othmer, The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster, J Theor Biol, vol.223, pp.1-18, 2003.

M. Chaves, R. Albert, and E. D. Sontag, Robustness and fragility of Boolean models for genetic regulatory networks, J Theor Biol, vol.235, pp.431-449, 2005.

M. Elowitz and S. Leibler, A synthetic oscillatory network of transcriptional regulators, Nature, vol.403, pp.335-338, 2000.

T. Gardner, C. Cantor, and J. J. Collins, Construction of a genetic toggle switch in Escherichia coli, Nature, vol.403, pp.335-338, 2000.

A. Becskei and L. Serrano, Engineering stability in gene networks by autoregulation, Nature, vol.405, pp.590-593, 2000.

M. Atkinson, M. Savageau, J. Myers, and A. Ninfa, Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli, Cell, vol.30, pp.597-607, 2003.

J. A. Edlund and C. Adami, Evolution of robustness in digital organisms, Artif Life, vol.10, pp.167-179, 2004.

M. Aldana and P. Cluzel, A natural class of robust networks, Proc Natl Acad Sci U S A, vol.100, pp.8710-8714, 2003.

I. Shmulevich, H. Lahdesmaki, E. R. Dougherty, J. Astola, and W. Zhang, The role of certain Post classes in Boolean network models of genetic networks, Proc Natl Acad Sci U S A, vol.100, pp.10734-10739, 2003.

J. Reinitz, Gene circuits for eve stripes: Reverse engineering the Drosophila segmentation gene network, Biophys J, vol.76, p.272, 1999.

D. H. Sharp and J. Reinitz, Prediction of mutant expression patterns using gene circuits, Biosystems, vol.47, pp.79-90, 1998.

E. Mjolsness, D. H. Sharp, and J. Reinitz, A connectionist model of development, J Theor Biol, vol.152, pp.429-453, 1991.

A. Wagner, Does evolutionary plasticity evolve?, Evolution, vol.50, pp.1008-1023, 1996.

M. Siegal and A. Bergman, Waddington's canalization revisited: Developmental stability and evolution, Proc Natl Acad Sci U S A, vol.99, pp.10528-10532, 2002.

A. Bergman and M. Siegal, Evolutionary capacitance as a general feature of complex gene networks, Nature, vol.424, pp.549-552, 2003.

S. Bornholdt and K. Sneppen, Robustness as an evolutionary principle, Proc R Soc Lond B Biol Sci, vol.267, pp.2281-2286, 2000.

R. Azevedo, R. Lohaus, S. Srinivasan, K. K. Dang, and C. L. Burch, Sexual reproduction selects for robustness and negative epistasis in artificial gene networks, Nature, vol.440, pp.87-90, 2006.

I. Shmulevich, S. A. Kauffman, and M. Aldana, Eukaryotic cells are dynamically ordered or critical but not chaotic, Proc Natl Acad Sci U S A, vol.102, pp.13439-13444, 2005.

S. Kauffman, C. Peterson, B. Samuelsson, and C. Troein, Random Boolean network models and the yeast transcriptional network, Proc Natl Acad Sci U S A, vol.100, pp.14796-14799, 2003.

S. Kauffman, C. Peterson, B. Samuelsson, and C. Troein, Genetic networks with canalyzing Boolean rules are always stable, Proc Natl Acad Sci U S A, vol.101, pp.17102-17107, 2004.

R. Thomas, D. 'ari, and R. , Biological feedback, vol.328, 1990.
URL : https://hal.archives-ouvertes.fr/hal-00087681

J. Stone and G. Wray, Rapid evolution of cis-regulatory sequences via local point mutations, Mol Biol Evol, vol.18, pp.1764-1770, 2001.

L. W. Ancel and W. Fontana, Plasticity, evolvability, and modularity in RNA, J Exp Zool/Mol Dev Evol, vol.288, pp.242-283, 2000.

C. Wilke and C. Adami, The biology of digital organisms, Trends Ecol Evol, vol.17, pp.528-532, 2002.

E. Van-nimwegen, J. Crutchfield, and M. Huynen, Neutral evolution of mutational robustness, Proc Natl Acad Sci U S A, vol.96, pp.9716-9720, 1999.

F. Harary, Graph theory, 1969.

J. D. Bryngelson and P. G. Wolynes, Spin glasses and the statistical mechanics of protein folding, Proc Natl Acad Sci U S A, vol.84, pp.7524-7528, 1987.

D. J. Amit, Modeling brain function. The world of attractor neural networks, vol.528, 1989.

S. A. Kauffman, The origins of order, vol.734, 1993.

A. Wagner, Circuit topology and the evolution of robustness in twogene circadian oscillators, Proc Natl Acad Sci U S A, vol.102, pp.11775-11780, 2005.

V. Mustonen and M. Lassig, Evolutionary population genetics of promoters: Predicting binding sites and functional phylogenies, Proc Natl Acad Sci U S A, vol.102, pp.15936-15941, 2005.

A. M. Moses, D. Y. Chiang, D. A. Pollard, V. N. Iyer, and M. B. Eisen, MONKEY: Identifying conserved transcription-factor binding sites in multiple alignments using a binding site-specific evolutionary model, Genome Biol, vol.5, p.98, 2004.

P. Schuster, W. Fontana, P. Stadler, and I. Hofacker, From sequences to shapes and back-A case-study in RNA secondary structures, Proc R Soc Lond B, vol.255, pp.279-284, 1994.

H. Li, R. Helling, C. Tang, and N. Wingreen, Emergence of preferred structures in a simple model of protein folding, Science, vol.273, pp.666-669, 1996.

D. Lipman and W. Wilbur, Modeling neutral and selective evolution of protein folding, Proc Roy Soc Lond B, vol.245, pp.7-11, 1991.

E. Bornberg-bauer, How are model protein structures distributed in sequence space?, Biophysl J, vol.73, pp.2393-2403, 1997.

E. Schultes and D. Bartel, One sequence, two ribozymes: Implications for the emergence of new ribozyme folds, Science, vol.289, pp.448-452, 2000.

A. Wagner, Robustness and evolvability in living systems, vol.408, 2005.

R. Montville, R. Froissart, S. K. Remold, O. Tenaillon, and P. E. Turner, Evolution of mutational robustness in an RNA virus, Plos Biol, vol.3, issue.11, p.381, 2005.
URL : https://hal.archives-ouvertes.fr/inserm-00708445

R. Sanjuan, J. Forment, and S. F. Elena, In silico predicted robustness of viroids RNA secondary structures. I. The effect of single mutations, Mol Biol Evol, vol.23, pp.1427-1436, 2006.

A. Wagner and P. Stadler, Viral RNA and evolved mutational robustness, J Exp Zool/Mol Dev Evol, vol.285, pp.119-127, 1999.