P. W. Rothemund, Folding DNA to create nanoscale shapes and patterns, Nature, vol.440, pp.297-302, 2006.

A. Kuzyk, DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response, Nature, vol.483, pp.311-314, 2012.

D. Y. Zhang, S. X. Chen, and P. Yin, Optimizing the specificity of nucleic acid hybridization, Nature Chem, vol.4, pp.208-214, 2012.

G. Seelig, Enzyme-free nucleic acid logic circuits, Science, vol.314, pp.1585-1588, 2006.

M. Takinoue, Experiments and simulation models of a basic computation element of an autonomous molecular computing system, Phys. Rev. E, vol.78, p.41921, 2008.

E. Katz and V. Privman, Enzyme-based logic systems for information processing, Chem. Soc. Rev, vol.39, pp.1835-1857, 2010.

A. J. Genot, J. Bath, and A. J. Turberfield, Reversible logic circuits made of DNA, J. Am. Chem. Soc, vol.133, 2011.

L. Qian and E. Winfree, Scaling up digital circuit computation with DNA strand displacement cascades, Science, vol.332, pp.1196-1201, 2011.

R. Orbach, Logic reversibility and thermodynamic irreversibility demonstrated by DNAzyme-based Toffoli and Fredkin logic gates, Proc. Natl Acad. Sci. USA, vol.109, pp.21228-21233, 2012.

A. J. Genot, J. Bath, and A. J. Turberfield, Combinatorial displacement of DNA strands: application to matrix multiplication and weighted sums, Angew. Chem. Int. Ed, vol.52, pp.1189-1192, 2013.

R. Daniel, Synthetic analog computation in living cells, Nature, vol.497, pp.619-623, 2013.

R. Sarpeshkar, Analog synthetic biology, Phil. Trans. R. Soc. A, vol.372, p.20130110, 2014.

U. Alon, An Introduction to Systems Biology, 2007.

T. S. Hatakeyama and K. Kaneko, Generic temperature compensation of biological clocks by autonomous regulation of catalyst concentration, Proc. Natl Acad. Sci. USA, vol.109, pp.8109-8114, 2012.

T. Fujii and Y. Rondelez, Predator-prey molecular ecosystems, ACS Nano, vol.7, pp.27-34, 2013.

K. Montagne, Programming an in vitro DNA oscillator using a molecular networking strategy, Mol. Syst. Biol, vol.7, p.466, 2011.

J. Kim and E. Winfree, Synthetic in vitro transcriptional oscillators, Mol. Syst. Biol, vol.7, p.465, 2011.

A. Padirac, T. Fujii, and Y. Rondelez, Bottom-up construction of in vitro switchable memories, Proc. Natl Acad. Sci. USA, vol.109, pp.3212-3220, 2012.

J. Kim, K. S. White, and E. Winfree, Construction of an in vitro bistable circuit from synthetic transcriptional switches, Mol. Syst. Biol, vol.2, p.68, 2006.

L. Qian, E. Winfree, and J. Bruck, Neural network computation with DNA strand displacement cascades, Nature, vol.475, pp.368-372, 2011.

Y. Chen, Programmable chemical controllers made from DNA, Nature Nanotech, vol.8, pp.755-762, 2013.

E. Franco, Timing molecular motion and production with a synthetic transcriptional clock, Proc. Natl Acad. Sci. USA, vol.108, pp.784-793, 2011.

E. Karzbrun, Programmable on-chip DNA compartments as artificial cells, Science, vol.345, pp.829-832, 2014.

H. Niederholtmeyer, Rapid cell-free forward engineering of novel genetic ring oscillators, p.9771, 2015.

I. R. Epstein and J. A. Pojman, An Introduction to Nonlinear Chemical Dynamics, 1998.

B. Wei, M. Dai, and P. Yin, Complex shapes self-assembled from single-stranded DNA tiles, Nature, vol.485, pp.623-626, 2012.

H. Niederholtmeyer, V. Stepanova, and S. J. Maerkl, Implementation of cell-free biological networks at steady state, Proc. Natl Acad. Sci. USA, vol.110, pp.15985-15990, 2013.

J. Galas, A. Haghiri-gosnet, and A. Estevez-torres, A nanoliter-scale open chemical reactor, Lab Chip, vol.13, pp.415-423, 2013.

H. Sugiura, Pulse-density modulation control of chemical oscillation far from equilibrium in a droplet open-reactor system, Nature Commun, vol.7, p.10212, 2016.

K. Hasatani, High-throughput and long-term observation of compartmentalized biochemical oscillators, Chem. Commun, vol.49, pp.8090-8092, 2013.
URL : https://hal.archives-ouvertes.fr/hal-01901022

M. Weitz, Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator, Nature Chem, vol.6, pp.295-302, 2014.

H. Song, D. L. Chen, and R. F. Ismagilov, Reactions in droplets in microfluidic channels, Angew. Chem. Int. Ed, vol.45, pp.7336-7356, 2006.

J. J. Agresti, Ultrahigh-throughput screening in drop-based microfluidics for directed evolution, Proc. Natl Acad. Sci. USA, vol.107, pp.4004-4009, 2010.
URL : https://hal.archives-ouvertes.fr/hal-02136491

T. S. Gardner, C. R. Cantor, and J. J. Collins, Construction of a genetic toggle switch in Escherichia coli, Nature, vol.403, pp.339-342, 2000.

A. Baccouche, Dynamic DNA-toolbox reaction circuits: a walkthrough, Methods, vol.67, pp.234-249, 2014.

J. D. Crawford, Introduction to bifurcation theory, Rev. Mod. Phys, vol.63, pp.991-1037, 1991.

L. Dai, Generic indicators for loss of resilience before a tipping point leading to population collapse, Science, vol.336, pp.1175-1177, 2012.

R. Ma, Small-number effects: a third stable state in a genetic bistable toggle switch, Phys. Rev. Lett, vol.109, p.248107, 2012.

S. Huang, Reprogramming cell fates: reconciling rarity with robustness, Bioessays, vol.31, pp.546-560, 2009.

A. J. Genot, T. Fujii, and Y. Rondelez, Computing with competition in biochemical networks, Phys. Rev. Lett, vol.109, p.208102, 2012.

N. Hansen and A. Ostermeier, Completely derandomized self-adaptation in evolution strategies, Evol. Comput, vol.9, pp.159-195, 2001.

A. Prindle, Rapid and tunable post-translational coupling of genetic circuits, Nature, vol.508, pp.387-391, 2014.

H. W. Van-roekel, Automated design of programmable enzyme-driven DNA circuits, ACS Synth. Biol, vol.4, pp.735-745, 2015.

O. Decroly and A. Goldbeter, Birhythmicity, chaos, and other patterns of temporal self-organization in a multiply regulated biochemical system, Proc. Natl Acad. Sci. USA, vol.79, pp.6917-6921, 1982.

E. Tan, Specific versus nonspecific isothermal DNA amplification through thermophilic polymerase and nicking enzyme activities, Biochemistry, vol.47, pp.9987-9999, 2008.

H. Urabe, Compartmentalization in a water-in-oil emulsion repressed the spontaneous amplification of RNA by Q? replicase, Biochemistry, vol.49, pp.1809-1813, 2010.

L. S. Tsimring, Noise in biology, Rep. Prog. Phys, vol.77, p.26601, 2014.

A. Yamagata, Overexpression, purification and characterization of RecJ protein from Thermus thermophilus HB8 and its core domain, Nucleic Acids Res, vol.29, pp.4617-4624, 2001.

C. Holtze, Biocompatible surfactants for water-in-fluorocarbon emulsions, Lab Chip, vol.8, pp.1632-1639, 2008.

A. D. Edelstein, Advanced methods of microscope control using ?Manager software, J. Biol. Methods, vol.1, p.11, 2014.