Imperial College/Courses/Fall2009/Synthetic Biology (MRes class)/Resources/Literature
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General Reviews on Synthetic Biology
- Voigt CA. Genetic parts to program bacteria. Curr Opin Biotechnol. 2006 Oct;17(5):548-57. DOI:10.1016/j.copbio.2006.09.001 |
- Endy D. Foundations for engineering biology. Nature. 2005 Nov 24;438(7067):449-53. DOI:10.1038/nature04342 |
- Andrianantoandro E, Basu S, Karig DK, and Weiss R. Synthetic biology: new engineering rules for an emerging discipline. Mol Syst Biol. 2006;2:2006.0028. DOI:10.1038/msb4100073 |
- Hasty J, McMillen D, and Collins JJ. Engineered gene circuits. Nature. 2002 Nov 14;420(6912):224-30. DOI:10.1038/nature01257 |
- Drubin DA, Way JC, and Silver PA. Designing biological systems. Genes Dev. 2007 Feb 1;21(3):242-54. DOI:10.1101/gad.1507207 |
- Yeh BJ and Lim WA. Synthetic biology: lessons from the history of synthetic organic chemistry. Nat Chem Biol. 2007 Sep;3(9):521-5. DOI:10.1038/nchembio0907-521 |
- Keasling JD. Synthetic biology for synthetic chemistry. ACS Chem Biol. 2008 Jan 18;3(1):64-76. DOI:10.1021/cb7002434 |
- Serrano L. Synthetic biology: promises and challenges. Mol Syst Biol. 2007;3:158. DOI:10.1038/msb4100202 |
Seminal Papers
- 'Cellular Gate Technology', 1998, Knight, Thomas F. Sussman, Gerald Jay
- 'A Standard Parts List for Biological Circuitry', 1999, Arkin, Adam Endy, Drew
- 'Cellular computation and communications using engineered genetic regulatory networks', 2001, Ron Weiss
- Elowitz MB and Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature. 2000 Jan 20;403(6767):335-8. DOI:10.1038/35002125 |
- Gardner TS, Cantor CR, and Collins JJ. Construction of a genetic toggle switch in Escherichia coli. Nature. 2000 Jan 20;403(6767):339-42. DOI:10.1038/35002131 |
Cool/Inspiring Synthetic Biology Projects
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- Chan LY, Kosuri S, and Endy D. Refactoring bacteriophage T7. Mol Syst Biol. 2005;1:2005.0018. DOI:10.1038/msb4100025 |
- Anderson JC, Voigt CA, and Arkin AP. Environmental signal integration by a modular AND gate. Mol Syst Biol. 2007;3:133. DOI:10.1038/msb4100173 |
- Deans TL, Cantor CR, and Collins JJ. A tunable genetic switch based on RNAi and repressor proteins for regulating gene expression in mammalian cells. Cell. 2007 Jul 27;130(2):363-72. DOI:10.1016/j.cell.2007.05.045 |
- Anderson JC, Clarke EJ, Arkin AP, and Voigt CA. Environmentally controlled invasion of cancer cells by engineered bacteria. J Mol Biol. 2006 Jan 27;355(4):619-27. DOI:10.1016/j.jmb.2005.10.076 |
- Lu TK and Collins JJ. Dispersing biofilms with engineered enzymatic bacteriophage. Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11197-202. DOI:10.1073/pnas.0704624104 |
- Murphy KF, Balázsi G, and Collins JJ. Combinatorial promoter design for engineering noisy gene expression. Proc Natl Acad Sci U S A. 2007 Jul 31;104(31):12726-31. DOI:10.1073/pnas.0608451104 |
- Basu S, Gerchman Y, Collins CH, Arnold FH, and Weiss R. A synthetic multicellular system for programmed pattern formation. Nature. 2005 Apr 28;434(7037):1130-4. DOI:10.1038/nature03461 |
- You L, Cox RS 3rd, Weiss R, and Arnold FH. Programmed population control by cell-cell communication and regulated killing. Nature. 2004 Apr 22;428(6985):868-71. DOI:10.1038/nature02491 |
- Yokobayashi Y, Weiss R, and Arnold FH. Directed evolution of a genetic circuit. Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16587-91. DOI:10.1073/pnas.252535999 |
- Basu S, Mehreja R, Thiberge S, Chen MT, and Weiss R. Spatiotemporal control of gene expression with pulse-generating networks. Proc Natl Acad Sci U S A. 2004 Apr 27;101(17):6355-60. DOI:10.1073/pnas.0307571101 |
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- Fung E, Wong WW, Suen JK, Bulter T, Lee SG, and Liao JC. A synthetic gene-metabolic oscillator. Nature. 2005 May 5;435(7038):118-22. DOI:10.1038/nature03508 |
- Murphy KF, Balázsi G, and Collins JJ. Combinatorial promoter design for engineering noisy gene expression. Proc Natl Acad Sci U S A. 2007 Jul 31;104(31):12726-31. DOI:10.1073/pnas.0608451104 |
Expression Chassis Related
- Luisi PL. Toward the engineering of minimal living cells. Anat Rec. 2002 Nov 1;268(3):208-14. DOI:10.1002/ar.10155 |
- Murtas G, Kuruma Y, Bianchini P, Diaspro A, and Luisi PL. Protein synthesis in liposomes with a minimal set of enzymes. Biochem Biophys Res Commun. 2007 Nov 9;363(1):12-7. DOI:10.1016/j.bbrc.2007.07.201 |
- Forster AC and Church GM. Towards synthesis of a minimal cell. Mol Syst Biol. 2006;2:45. DOI:10.1038/msb4100090 |
- Murtas G. Question 7: construction of a semi-synthetic minimal cell: a model for early living cells. Orig Life Evol Biosph. 2007 Oct;37(4-5):419-22. DOI:10.1007/s11084-007-9090-5 |
- Noireaux V, Bar-Ziv R, Godefroy J, Salman H, and Libchaber A. Toward an artificial cell based on gene expression in vesicles. Phys Biol. 2005 Sep 15;2(3):P1-8. DOI:10.1088/1478-3975/2/3/P01 |
- Noireaux V and Libchaber A. A vesicle bioreactor as a step toward an artificial cell assembly. Proc Natl Acad Sci U S A. 2004 Dec 21;101(51):17669-74. DOI:10.1073/pnas.0408236101 |
- Ishikawa K, Sato K, Shima Y, Urabe I, and Yomo T. Expression of a cascading genetic network within liposomes. FEBS Lett. 2004 Oct 22;576(3):387-90. DOI:10.1016/j.febslet.2004.09.046 |
- Rackham O and Chin JW. Cellular logic with orthogonal ribosomes. J Am Chem Soc. 2005 Dec 21;127(50):17584-5. DOI:10.1021/ja055338d |
- Rackham O and Chin JW. A network of orthogonal ribosome x mRNA pairs. Nat Chem Biol. 2005 Aug;1(3):159-66. DOI:10.1038/nchembio719 |
DNA Assembly Related
- Idempotent Vector Design for Standard Assembly of Biobricks, Knight T. et al (2003)
- A New Biobrick Assembly Strategy Designed for Facile Protein Engineering, Phillips, Silver (2006)
Modelling Related
- Dynamics and Control of Synthetic Bio-molecular Networks (Del Vecchio and Sontag, 2007)
- Modular cell biology: retroactivity and insulation (Del Vecchio et al, 2007)
- An Introduction to Systems Biology (Uri Alon)
Synthetic Biology: Ethics and Impact on Society
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- Bügl H, Danner JP, Molinari RJ, Mulligan JT, Park HO, Reichert B, Roth DA, Wagner R, Budowle B, Scripp RM, Smith JA, Steele SJ, Church G, and Endy D. DNA synthesis and biological security. Nat Biotechnol. 2007 Jun;25(6):627-9. DOI:10.1038/nbt0607-627 |
