D. Angeli, D. Leenheer, P. Sontag, and E. , A Petri net approach to the study of persistence in chemical reaction networks, Mathematical Biosciences, vol.210, issue.2, pp.598-618, 2007.
DOI : 10.1016/j.mbs.2007.07.003

D. Angeli, D. Leenheer, P. Sontag, and E. , Persistence Results for Chemical Reaction Networks with Time-Dependent Kinetics and No Global Conservation Laws, SIAM Journal on Applied Mathematics, vol.71, issue.1, pp.128-146, 2011.
DOI : 10.1137/090779401

W. Basener, B. Brooks, and D. Ross, The Brouwer Fixed Point Theorem applied to rumour transmission, Applied Mathematics Letters, vol.19, issue.8, pp.841-842, 2006.
DOI : 10.1016/j.aml.2006.02.007

E. Bigan, J. Steyaert, and S. Douady, Minimal Conditions for Protocell Stationary Growth, Artificial Life, vol.21, issue.2, pp.166-192, 2015.
DOI : 10.1016/j.jtbi.2009.06.001
URL : https://hal.archives-ouvertes.fr/hal-01253740

E. Bigan, J. Steyaert, and S. Douady, On Necessary and Sufficient Conditions for Proto-cell Stationary Growth, Electronic Notes in Theoretical Computer Science, vol.316, pp.3-15, 2015.
DOI : 10.1016/j.entcs.2015.06.007

E. Bigan, J. Steyaert, and S. Douady, Chemical Schemes for Maintaining Different Compositions Across a Semi-permeable Membrane with Application to Proto-cells, Origins of Life and Evolution of Biospheres, vol.36, issue.6, pp.439-454, 2015.
DOI : 10.1007/s11084-015-9453-2

E. Bigan, J. Steyaert, and S. Douady, Filamentation as primitive growth mode?, Physical Biology, vol.12, issue.6, p.66024, 2015.
DOI : 10.1088/1478-3975/12/6/066024

B. Bo?i? and S. Svetina, A relationship between membrane properties forms the basis of a selectivity mechanism for vesicle self-reproduction, European Biophysics Journal, vol.268, issue.7, pp.565-571, 2004.
DOI : 10.1007/s00249-004-0404-5

W. Busa and R. Nuccitelli, Metabolic regulation via intracellular pH, American Journal of Physiology-Regulatory, Integrative and Comparative Physiology, vol.246, issue.4, pp.409-438, 1984.

G. Craciun and M. Feinberg, Multiple Equilibria in Complex Chemical Reaction Networks: I. The Injectivity Property, SIAM Journal on Applied Mathematics, vol.65, issue.5, pp.1526-1546, 2005.
DOI : 10.1137/S0036139904440278

G. Craciun and M. Feinberg, Multiple Equilibria in Complex Chemical Reaction Networks: II. The Species-Reaction Graph, SIAM Journal on Applied Mathematics, vol.66, issue.4, pp.1321-1338, 2006.
DOI : 10.1137/050634177

J. Dickinson, Filament formation in Saccharomyces cerevisiae ??? a review, Folia Microbiologica, vol.22, issue.1, pp.3-14, 2008.
DOI : 10.1007/s12223-008-0001-6

M. Ederer, E. P. Gilles, and J. Tóth, Thermodynamically feasible kinetic models of reaction networks Mathematical models of chemical reactions: theory and applications of deterministic and stochastic models Complex balancing in general kinetic systems, Biophysical Journal Archive for Rational Mechanics and Analysis, vol.92, issue.493, pp.1846-1857, 1972.

M. Feinberg, The existence and uniqueness of steady states for a class of chemical reaction networks, Archive for Rational Mechanics and Analysis, vol.49, issue.4, pp.311-370, 1979.
DOI : 10.1007/BF00375614

J. Gunawardena, Chemical reaction network theory for insilico biologists. Notes available for download at http://vcp.med. harvard.edu/papers/crnt.pdf Himeoka Y, Kaneko K (2014) Entropy production of a steady-growth cell with catalytic reactions, Physical Review E, vol.90, issue.4, p.42714, 2003.

S. Hohmann, Osmotic Stress Signaling and Osmoadaptation in Yeasts, Microbiology and Molecular Biology Reviews, vol.66, issue.2, pp.300-372, 2002.
DOI : 10.1128/MMBR.66.2.300-372.2002

F. Horn, Necessary and sufficient conditions for complex balancing in chemical kinetics, Archive for Rational Mechanics and Analysis, vol.49, issue.3, pp.172-186, 1972.
DOI : 10.1007/BF00255664

K. Jahreis, E. Pimentel-schmitt, R. Brückner, and F. Titgemeyer, Ins and outs of glucose transport systems in eubacteria, FEMS Microbiology Reviews, vol.32, issue.6, pp.891-907, 2008.
DOI : 10.1111/j.1574-6976.2008.00125.x

R. Jensen and C. Woolfolk, Formation of filaments by Pseudomonas putida, Applied and Environmental Microbiology, vol.50, issue.2, pp.364-372, 1985.

Y. Kondo and K. Kaneko, Growth states of catalytic reaction networks exhibiting energy metabolism, Physical Review E, vol.84, issue.1, p.11927, 2011.
DOI : 10.1103/PhysRevE.84.011927

F. Mavelli and K. Ruiz-mirazo, Theoretical conditions for the stationary reproduction of model protocells, Integr. Biol., vol.409, issue.4, pp.324-341, 2013.
DOI : 10.1039/C2IB20222K

D. Molenaar, R. Van-berlo, D. De-ridder, and B. Teusink, Shifts in growth strategies reflect tradeoffs in cellular economics, Molecular Systems Biology, vol.8, issue.1, p.323, 2009.
DOI : 10.1038/msb.2009.82

J. Morgan, I. Surovtsev, and P. Lindahl, A framework for whole-cell mathematical modeling, Journal of Theoretical Biology, vol.231, issue.4, pp.581-596, 2004.
DOI : 10.1016/j.jtbi.2004.07.014

T. Murata, Petri nets: Properties, analysis and applications, Proceedings of the IEEE, pp.541-580, 1989.
DOI : 10.1109/5.24143

A. Olson and J. Pessin, Structure, Function, and Regulation of the Mammalian Facilitative Glucose Transporter Gene Family, Annual Review of Nutrition, vol.16, issue.1, pp.235-256, 1996.
DOI : 10.1146/annurev.nu.16.070196.001315

J. Orth, I. Thiele, and B. Palsson, What is flux balance analysis?, Nature Biotechnology, vol.19, issue.3, pp.245-248, 2010.
DOI : 10.1038/nbt.1614

P. Paww-lowski and P. Zielenkiewicz, Biochemical kinetics in changing volumes, Acta Biochimica Polonica, vol.51, pp.231-243, 2004.

D. Richeson and J. Wiseman, A fixed point theorem for bounded dynamical systems, Illinois Journal of Mathematics, vol.46, issue.2, pp.491-495, 2002.

M. Schaechter, O. Maaløe, and N. Kjeldgaard, Dependency on Medium and Temperature of Cell Size and Chemical Composition during Balanced Growth of Salmonella typhimurium, Journal of General Microbiology, vol.19, issue.3, pp.592-606, 1958.
DOI : 10.1099/00221287-19-3-592

C. Schilling, D. Letscher, and B. Palsson, Theory for the Systemic Definition of Metabolic Pathways and their use in Interpreting Metabolic Function from a Pathway-Oriented Perspective, Journal of Theoretical Biology, vol.203, issue.3, pp.229-248, 2000.
DOI : 10.1006/jtbi.2000.1073

P. Schlosser and M. Feinberg, A theory of multiple steady states in isothermal homogeneous CFSTRs with many reactions, Chemical Engineering Science, vol.49, issue.11, pp.1749-1767, 1994.
DOI : 10.1016/0009-2509(94)80061-8

S. Schuster and C. Hilgetag, ON ELEMENTARY FLUX MODES IN BIOCHEMICAL REACTION SYSTEMS AT STEADY STATE, Journal of Biological Systems, vol.02, issue.02, pp.165-182, 1994.
DOI : 10.1142/S0218339094000131

S. Schuster and T. Höfer, Determining all extreme semi-positive conservation relations in chemical reaction systems: a test criterion for conservativity, J. Chem. Soc., Faraday Trans., vol.22, issue.16, pp.2561-2566, 1991.
DOI : 10.1039/FT9918702561

M. Scott, C. Gunderson, E. Mateescu, Z. Zhang, and T. Hwa, Interdependence of Cell Growth and Gene Expression: Origins and Consequences, Science, vol.330, issue.6007, pp.1099-1102, 2010.
DOI : 10.1126/science.1192588

P. Stano and P. Luisi, Achievements and open questions in the self-reproduction of vesicles and synthetic minimal cells, Chemical Communications, vol.20, issue.21, pp.3639-3653, 2010.
DOI : 10.1007/s11693-010-9054-3

I. Surovstev, J. Morgan, and P. Lindahl, Whole-cell modeling framework in which biochemical dynamics impact aspects of cellular geometry, Journal of Theoretical Biology, vol.244, issue.1, pp.154-166, 2007.
DOI : 10.1016/j.jtbi.2006.07.020

I. Surovtsev, Z. Zhang, P. Lindahl, and J. Morgan, Mathematical modeling of a minimal protocell with coordinated growth and division, Journal of Theoretical Biology, vol.260, issue.3, pp.422-429, 2009.
DOI : 10.1016/j.jtbi.2009.06.001

A. Tadmor and T. Tlusty, A Coarse-Grained Biophysical Model of E. coli and Its Application to Perturbation of the rRNA Operon Copy Number, PLoS Computational Biology, vol.20, issue.5, p.1000038, 2008.
DOI : 10.1371/journal.pcbi.1000038.s016

J. Wei, Axiomatic Treatment of Chemical Reaction Systems, The Journal of Chemical Physics, vol.36, issue.6, pp.1578-1584, 1962.
DOI : 10.1063/1.1732783

A. Weiße, D. Oyarzún, V. Danos, and P. Swain, Mechanistic links between cellular trade-offs, gene expression, and growth, Proceedings of the National Academy of Sciences, vol.112, issue.9, pp.1038-1047, 2015.
DOI : 10.1101/014787

C. Wittmann, M. Hans, W. Van-winden, C. Ras, and J. Heijnen, Dynamics of intracellular metabolites of glycolysis and TCA cycle during cell-cycle-related oscillation inSaccharomyces cerevisiae, Biotechnology and Bioengineering, vol.75, issue.7, pp.839-847, 2005.
DOI : 10.1002/bit.20408