Team:TUDelft/Modeling References

From 2009.igem.org

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(http://www.sciencedirect.com/science/article/B6WPJ-4HV73GJ-1/2/36f5ff80fe56e2533f1ec0699bf12a7e)
(http://www.sciencedirect.com/science/article/B6WPJ-4HV73GJ-1/2/36f5ff80fe56e2533f1ec0699bf12a7e)
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3. http://parts.mit.edu/igem07/index.php?title=ETHZ/Parameters
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3. https://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.
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.
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9. Aurélien Rizk , Gregory Batt , François Fages , and Sylvain Soliman. <i>A general computational method for robustness analysis with applications to synthetic gene networks</i>. 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
9. Aurélien Rizk , Gregory Batt , François Fages , and Sylvain Soliman. <i>A general computational method for robustness analysis with applications to synthetic gene networks</i>. 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
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10. Cristina Lagido,Ian J Wilson,L.Anne Glover,Jim I Prosser. <i>A model for bacterial conjugal gene transfer on solid surfaces</i>. FEMS Microbiology Ecology. vol 44. pg 67-78. 2003. [http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0]
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10. Cristina Lagido,Ian J Wilson,L.Anne Glover,Jim I Prosser. <i>A model for bacterial conjugal gene transfer on solid surfaces</i>. FEMS Microbiology Ecology. vol 44. pg 67-78. 2003. http://www.abdn.ac.uk/staffpages/uploads/mbi010/FEMS%20Microbiology%20Ecology%2044,%2067-78.pdf
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11. <i>Plasmid Biology</i>. Barbara E. Funnell and Gregory J. Phillips (editors) 2004 ASM Press. Chapter 9. [http://books.google.com/books?id=6qqshykPpakC&printsec=frontcover&source=gbs_v2_summary_r&cad=0#v=onepage&q=&f=false Google Books]
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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 (<i>ardA</i>) and SOS inhibition gene (<i>psiB</i>) early in conjugating recipient bacteria. Molecular Microbiology. vol 31. p 133-142. 1999. http://www3.interscience.wiley.com/journal/119078685/abstract
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Latest revision as of 16:55, 21 October 2009

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. https://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. [http://books.google.com/books?id=6qqshykPpakC&printsec=frontcover&source=gbs_v2_summary_r&cad=0#v=onepage&q=&f=false 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


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