Team:TUDelft/Modeling References

From 2009.igem.org

Modeling References

1. M. Santillan, M.C. Mackey, E.S. Zeron, Origin of Bistability in the lac Operon, Biophysical Journal, Volume 92, Issue 11, 1 June 2007, Pages 3830-3842, ISSN 0006-3495, DOI: 10.1529/biophysj.106.101717. (http://www.sciencedirect.com/science/article/B94RW-4V9YVV6-8/2/cd4c5ba8d532a314eed932d787f56a35)

2. Thuc T. Le, Calin C. Guet, Philippe Cluzel, Protein expression enhancement in efflux-deleted mutant bacteria, Protein Expression and Purification, Volume 48, Issue 1, July 2006, Pages 28-31, ISSN 1046-5928, DOI: 10.1016/j.pep.2005.11.018. (http://www.sciencedirect.com/science/article/B6WPJ-4HV73GJ-1/2/36f5ff80fe56e2533f1ec0699bf12a7e)

3. http://2007.igem.org/title=ETHZ/Parameters

4. Barrio M, Burrage K, Leier A, Tian T. Oscillatory regulation of Hes1: Discrete stochastic delay modelling and simulation. PLoS Comput Biol. 2006 Sep 8; 2(9): e117.

5. Liang, S.-T., Xu, Y.-C., Dennis, P., Bremer, H. mRNA Composition and Control of Bacterial Gene Expression. J. Bacteriol. 2000 182: 3037-3044.

6. Michail Stamatakis, Nikos V. Mantzaris, Comparison of Deterministic and Stochastic Models of the lac Operon Genetic Network, Biophysical Journal, Volume 96, Issue 3, 4 February 2009, Pages 887-906, ISSN 0006-3495, DOI: 10.1016/j.bpj.2008.10.028. (http://www.sciencedirect.com/science/article/B94RW-4VGGB7R-D/2/bd642ea418c1213f10259b778907a1ee)

7. E. coli Statistics http://gchelpdesk.ualberta.ca/CCDB/cgi-bin/STAT_NEW.cgi

8. Julian W. T. Wimpenny. CRC handbook of laboratory model systems for microbial ecosystems, Volume 2. page 127. http://books.google.com/books?id=wy4WFX3_7bMC

9. Aurélien Rizk , Gregory Batt , François Fages , and Sylvain Soliman. A general computational method for robustness analysis with applications to synthetic gene networks. Bioinformatics Advance Access published on June 15, 2009, DOI 10.1093/bioinformatics/btp200. Bioinformatics 25: i169-i178. http://bioinformatics.oxfordjournals.org/cgi/content/abstract/25/12/i169

10. Cristina Lagido,Ian J Wilson,L.Anne Glover,Jim I Prosser. A model for bacterial conjugal gene transfer on solid surfaces. FEMS Microbiology Ecology. vol 44. pg 67-78. 2003. http://www.abdn.ac.uk/staffpages/uploads/mbi010/FEMS%20Microbiology%20Ecology%2044,%2067-78.pdf

11. Plasmid Biology. Barbara E. Funnell and Gregory J. Phillips (editors) 2004 ASM Press. Chapter 9. Google Books

12. Nicola J. Althorpe,P aul M. Chilley, Angela T. Thomas, William J. Brammar, Brian M. Wilkins. Transient transcriptional activation of the IncI1 plasmid anti-restriction gene (ardA) and SOS inhibition gene (psiB) early in conjugating recipient bacteria. Molecular Microbiology. vol 31. p 133-142. 1999. http://www3.interscience.wiley.com/journal/119078685/abstract