T. Abel and K. M. Lattal, Molecular mechanisms of memory acquisition, consolidation and retrieval, Current Opinion in Neurobiology, vol.11, issue.2, pp.180-187, 2001.
DOI : 10.1016/S0959-4388(00)00194-X

C. M. Alberini, Mechanisms of memory stabilization: are consolidation and reconsolidation similar or distinct processes? Trends Neurosci, pp.51-56, 2005.

E. Altamura, P. Stano, P. Walde, and F. Mavelli, Giant vesicles as micro-sized enzymatic reactors: perspectives and recent experimental advancements, International Journal of Unconventional Computing, vol.11, pp.5-21, 2015.

A. Atala, R. Lanza, and J. Thomson, Foundation of Regenerative Medicine, 2010.

P. Baldan, N. Cocco, A. Marin, and M. Simeoni, Petri nets for modelling metabolic pathways: a survey, Natural Computing, vol.94, issue.1, pp.955-989, 2010.
DOI : 10.1021/jp993732q

U. S. Bhalla, Molecular computation in neurons: a modeling perspective, Current Opinion in Neurobiology, vol.25, pp.31-37, 2014.
DOI : 10.1016/j.conb.2013.11.006

M. Bitbol and P. L. Luisi, Autopoiesis with or without cognition: defining life at its edge, Journal of The Royal Society Interface, vol.1, issue.1, pp.99-107, 2004.
DOI : 10.1098/rsif.2004.0012

J. C. Blain and J. W. Szostak, Progress Toward Synthetic Cells, Annual Review of Biochemistry, vol.83, issue.1, pp.615-640, 2014.
DOI : 10.1146/annurev-biochem-080411-124036

D. Bray, Protein molecules as computational elements in living cells, Nature, vol.376, issue.6538, pp.307-312, 1995.
DOI : 10.1038/376307a0

R. Brette and A. Destexhe, Handbook of Neural Activity Measurement, 2012.
DOI : 10.1017/CBO9780511979958

URL : https://hal.archives-ouvertes.fr/hal-00739666

L. Calzone, F. Fages, and S. Soliman, BIOCHAM: an environment for modeling biological systems and formalizing experimental knowledge, Bioinformatics, vol.22, issue.14, pp.1805-1807, 2006.
DOI : 10.1093/bioinformatics/btl172

URL : https://hal.archives-ouvertes.fr/hal-01431364

L. Cardelli and G. Zavattaro, Turing universality of the biochemical ground form. mathematical structures in computer, Science, vol.20, pp.45-73, 2010.

L. Cardelli, Brane calculi-interaction of bological membranes, Proceedings of Computational Methods in Systems Biology, pp.257-280, 2004.

P. Carrara, P. Stano, and P. L. Luisi, Giant Vesicles ???Colonies???: A Model for Primitive Cell Communities, ChemBioChem, vol.12, issue.10, pp.1497-1502, 2012.
DOI : 10.1002/cbic.201100537

Y. Chen, N. Dalchau, N. Srinivas, A. Phillips, L. Cardelli et al., Programmable chemical controllers made from DNA, Nature Nanotechnology, vol.2, issue.10, pp.755-762, 2005.
DOI : 10.1038/srep00656

F. Ciocchetta and J. Hillston, Bio-PEPA: a Framework for the Modelling and Analysis of Biochemical Networks, Theoretical Computer Science, vol.33, issue.410, pp.34-3065, 2004.

L. Cronin, N. Krasnogor, B. G. Davis, C. Alexander, N. Robertson et al., The imitation game???a computational chemical approach to recognizing life, Nature Biotechnology, vol.59, issue.10, pp.24-1203, 2006.
DOI : 10.1126/science.1100757

V. Danos, J. Feret, W. Fontana, R. Harmer, and J. Krivine, Rule-Based Modelling of Cellular Signalling, Procs. CONCUR. LNCS, pp.17-41, 2007.
DOI : 10.1007/978-3-540-74407-8_3

URL : https://hal.archives-ouvertes.fr/hal-00164297

P. Degano and A. Bracciali, Process Calculi, Systems Biology and Artificial Chemistry, Handbook of Natural Computing, 2012.
DOI : 10.1007/978-3-540-92910-9_55

Y. Dudai, Consolidation: Fragility on the Road to the Engram, Neuron, vol.17, issue.3, pp.367-370, 1996.
DOI : 10.1016/S0896-6273(00)80168-3

D. Endy, Foundations for engineering biology, Nature, vol.42, issue.7067, pp.449-453, 2005.
DOI : 10.1021/bi034830b

W. Fontana and L. W. Buss, The arrival of the fittest: Toward a theory of biological organization, Bull. Math. Biol, vol.1, issue.56, pp.1-64, 1994.

P. M. Gardner, K. Winzer, and B. G. Davis, Sugar synthesis in a protocellular model leads to a cell signalling response in bacteria, Nature Chemistry, vol.29, issue.5, pp.377-383, 2009.
DOI : 10.1002/jlac.18611200308

D. G. Gibson, J. I. Glass, C. Lartigue, V. N. Noskov, R. Y. Chuang et al., Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome, Science, vol.6, issue.5, pp.52-56, 2010.
DOI : 10.1038/nmeth.1318

R. Gil, F. J. Silva, J. Peretó, and A. Moya, Determination of the Core of a Minimal Bacterial Gene Set, Microbiology and Molecular Biology Reviews, vol.68, issue.3, pp.518-537, 2004.
DOI : 10.1128/MMBR.68.3.518-537.2004

D. T. Gillespie, Exact stochastic simulation of coupled chemical reactions, The Journal of Physical Chemistry, vol.81, issue.25, pp.2340-2361, 1977.
DOI : 10.1021/j100540a008

M. Hadorn, E. Boenzli, K. T. Sørensen, D. De-lucrezia, M. M. Hanczyc et al., Defined DNA-Mediated Assemblies of Gene-Expressing Giant Unilamellar Vesicles, Langmuir, vol.29, issue.49, pp.15309-15319, 2013.
DOI : 10.1021/la402621r

M. Hadorn and P. Eggenberger-hotz, DNA-Mediated Self-Assembly of Artificial Vesicles, PLoS ONE, vol.5, issue.3, p.9886, 2010.
DOI : 10.1371/journal.pone.0009886.g005

N. Ichihashi, T. Matsuura, H. Kita, T. Sunami, H. Suzuki et al., Constructing Partial Models of Cells, Cold Spring Harbor Perspectives in Biology, vol.2, issue.6, p.4945, 2010.
DOI : 10.1101/cshperspect.a004945

D. Jaeger, Encyclopedia of Computational Neuroscience, 2015.

E. R. Kandel, Y. Dudai, and M. R. Mayford, The Molecular and Systems Biology of Memory, Cell, vol.157, issue.1, pp.163-186, 2014.
DOI : 10.1016/j.cell.2014.03.001

H. Kitano, Systems Biology: A Brief Overview, Science, vol.295, issue.5560, pp.1662-1666, 2002.
DOI : 10.1126/science.1069492

P. R. Leduc, M. S. Wong, P. M. Ferreira, R. E. Groff, K. Haslinger et al., Towards an in vivo biologically inspired nanofactory, Nature Nanotechnology, vol.3, issue.1, pp.3-7, 2007.
DOI : 10.1038/nnano.2006.180

S. Leduc, La Biologie Synthétique, Etudes de Biophysique, 1912.

R. Lentini, S. Santero, F. Chizzolini, D. Cecchi, J. Fontana et al., Integrating artificial with natural cells to translate chemical messages that direct E. coli behaviour, Nature Communications, vol.80, 2014.
DOI : 10.1186/1471-2199-12-18

V. De-lorenzo and A. Danchin, Synthetic biology: discovering new worlds and new words. The new and not so new aspects of this emerging research field, EMBO reports, vol.294, issue.9, pp.822-827, 2008.
DOI : 10.1038/nbt1314

P. L. Luisi, Autopoiesis: a review and a reappraisal, Naturwissenschaften, vol.90, issue.2, pp.49-59, 2003.

P. L. Luisi, F. Ferri, and P. Stano, Approaches to semi-synthetic minimal cells: a review, Naturwissenschaften, vol.299, issue.1, pp.1-13, 2006.
DOI : 10.1007/978-1-4615-6369-3_1

H. R. Maturana and F. J. Varela, Autopoiesis and Cognition: The Realization of the Living, 1980.
DOI : 10.1007/978-94-009-8947-4

S. Mckenzie and H. Eichenbaum, Consolidation and Reconsolidation: Two Lives of Memories?, Neuron, vol.71, issue.2, pp.224-233, 2011.
DOI : 10.1016/j.neuron.2011.06.037

Y. Moritani, S. M. Nomura, I. Morita, and K. Akiyoshi, Direct integration of cell-free-synthesized connexin-43 into liposomes and hemichannel formation, FEBS Journal, vol.52, issue.16, pp.3343-3352, 2010.
DOI : 10.1016/j.comnet.2008.04.001

T. Nakano, M. Moore, A. Enomoto, and T. Suda, Molecular Communication Technology as a Biological ICT, Biological Functions for Information and Communication Technologies 320 in Studies in Computational Intelligence, pp.49-86, 2011.
DOI : 10.1007/978-3-642-15102-6_2

T. Oberholzer, R. Wick, P. L. Luisi, and C. K. Biebricher, Enzymatic RNA Replication in Self-Reproducing Vesicles: An Approach to a Minimal Cell, Biochemical and Biophysical Research Communications, vol.207, issue.1, pp.250-257, 1995.
DOI : 10.1006/bbrc.1995.1180

O. Parvu, D. R. Gilbert, M. Heiner, F. Liu, N. Saunders et al., Spatialtemporal modelling and analysis of bacterial colonies with phase variable genes

C. Priami, A. Regev, E. Shapiro, and W. Silvermann, Application of a stochastic name-passing calculus to representation and simulation of molecular processes, Information Processing Letters, vol.80, issue.1, pp.141-167, 2004.
DOI : 10.1016/S0020-0190(01)00214-9

N. Ramakrishnan and U. S. Bhalla, Memory Switches in Chemical Reaction Space, PLoS Computational Biology, vol.4, issue.7, p.1000122, 2008.
DOI : 10.1371/journal.pcbi.1000122.s003

A. Ramundo-orlando, A. Serafino, and A. Villalobo, Gap junction channels reconstituted in two closely apposed lipid bilayers, Archives of Biochemistry and Biophysics, vol.436, issue.1, pp.128-135000227685000015, 2005.
DOI : 10.1016/j.abb.2005.01.019

A. Regev, E. Panina, W. Silverman, L. Cardelli, and E. Shapiro, BioAmbients: an abstraction for biological compartments, Theoretical Computer Science, vol.325, issue.1, pp.141-167, 2004.
DOI : 10.1016/j.tcs.2004.03.061

A. Regev and E. Shapiro, Cellular abstractions: Cells as computation, Nature, vol.419, issue.6905, p.343, 2002.
DOI : 10.1038/419343a

G. Seelig, D. Soloveichik, D. Zhang, and E. Winfree, Enzyme-Free Nucleic Acid Logic Circuits, Science, vol.314, issue.5805, pp.1584-1588, 2006.
DOI : 10.1126/science.1132493

P. Stano, P. Carrara, Y. Kuruma, T. P. Souza, and P. L. Luisi, Compartmentalized reactions as a case of soft-matter biotechnology: synthesis of proteins and nucleic acids inside lipid vesicles, Journal of Materials Chemistry, vol.89, issue.47, pp.18887-18902, 2011.
DOI : 10.1038/nchem.1127

P. Stano, G. Rampioni, P. Carrara, L. Damiano, L. Leoni et al., Semi-synthetic minimal cells as a tool for biochemical ICT, Biosystems, vol.109, issue.1, pp.24-34, 2012.
DOI : 10.1016/j.biosystems.2012.01.002

N. Tompkinsa, N. Lia, C. Girabawea, M. Heymanna, G. B. Ermentroutc et al., Testing Turing's theory of morphogenesis in chemical cells, Proceedings of the National Academy of Sciences, vol.241, issue.5804, pp.4397-4402, 2014.
DOI : 10.1038/nphys1651

A. M. Turing, The Chemical Basis of Morphogenesis, Philosophical Transactions of the Royal Society B: Biological Sciences, vol.237, issue.641, pp.37-72, 1952.
DOI : 10.1098/rstb.1952.0012

H. Wang, Y. Hu, and J. Z. Tsien, Molecular and systems mechanisms of memory consolidation and storage, Progress in Neurobiology, vol.79, issue.3, pp.123-135, 2006.
DOI : 10.1016/j.pneurobio.2006.06.004

E. Winfree, Algorithmic Self-Assembly of DNA, 2006 International Conference on Microtechnologies in Medicine and Biology, 1998.
DOI : 10.1109/MMB.2006.251471

E. Winfree, X. Yang, and N. C. Seeman, Universal computation via self-assembly of DNA: Some theory and experiments, DNA Based Computers, vol.44, pp.191-213, 1999.
DOI : 10.1090/dimacs/044/16

J. Wooley and H. Lin, Catalyzing Inquiry at the Interface of Computing and Biology, 2005.