Team:ETH Zurich/Modeling/References

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Modeling References
Single-Cell Model Microfluidics Model Combined Model
Of course, our models do not work without parameters, and in our case, there are quite a lot of them. In order to keep track of all of their respective values and units, we gathered them in a series of tables on this page.

Single-Cell Model

[1] [http://www.nature.com/nature/journal/v434/n7037/full/nature03461.html Subhayu Basu, Yoram Gerchman, Cynthia H. Collins, Frances H. Arnold & Ron Weiss, A synthetic multicellular system for programmed pattern formation, Nature Vol. 434, 2005]

[2] [http://www.pnas.org/content/101/30/10955.fullJordi Garcia-Ojalvo, Michael B. Elowitz, and Steven H. Strogatz, Modeling a synthetic multicellular clock: Repressilators coupled by quorum sensing, PNAS vol. 101 no. 30, 2004]

[3] MIT igem 2010

[4] [http://onlinelibrary.wiley.com/doi/10.1002/cyto.a.20461/abstract;jsessionid=00173AFD03BE779CB9031A77277F1458.d01t01 Michael Halter,Alex Tona,Kiran Bhadriraju,Anne L. Plant,John T. Elliott, Automated Live Cell Imaging of Green Fluorescent Protein Degradation in Individual Fibroblasts, Cytometry Part A, Volume 71A Issue 10, 2007]

[5] [http://www.nature.com/nbt/journal/v22/n11/full/nbt1021.html Weber W. et al, Gas-inducible transgene expression in mammalian cells and mice, Nature Biotechnology, volume 22, number 11, November 2004]

[6] [http://onlinelibrary.wiley.com/doi/10.1111/j.1462-2920.2010.02245.x/abstract Michalis Koutinas, Ming-Chi Lam, Alexandros Kiparissides, Rafael Silva-Rocha, Miguel Godinho, Andrew G. Livingston, Efstratios N. Pistikopoulos, Victor de Lorenzo, Vitor A. P. Martins dos Santos and Athanasios Mantalaris, The regulatory logic of m-xylene biodegradation by Pseudomonas putida mt-2 exposed by dynamic modelling of the principal node Ps/Pr of the TOL plasmid, Environmental Microbiology vol. 12, Issue 6, 2010]

[7] [http://aem.asm.org/cgi/reprint/64/3/1006 Development and Testing of a Bacterial Biosensor for Toluene-Based Environmental Contaminants]

Microfluidics Model

[8] [http://www.gsi-net.com/en/publications/gsi-chemical-database/single/3.html GSI Environmental Inc, Acetaldehyde, GSI Chemical Database]

[9] [http://jb.asm.org/cgi/reprint/185/5/1485 FIX ME Diffusion in Biofilms]

Combined Model

[10] [http://www.brenda-enzymes.org/php/result_flat.php4?ecno=1.2.1.10&Suchword=&organism[]=Escherichia+coli&show_tm=0 FIX ME BRENDA Acetaldehyde Dehydrogenase]

[11] [http://pubs.acs.org/doi/abs/10.1021/bi00529a026 Clifford C. Shone, Herbert J. Fromm, Steady-state and pre-steady-state kinetics of coenzyme A-linked aldehyde dehydrogenase from Escherichia coli, Biochemistry, 1981, 20 (26), pp 7494–7501]

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