Biology Reference
In-Depth Information
essential to synthesize such a cell. The advancement of high-throughput technologies has
certainly aided in the understanding of these mechanisms. However, the lack of efficient
methods to extract new information from the overwhelming volume of new data has
bottlenecked the advancement. With the development of new synthetic biology components
and tools targeting specific cellular components/functions, the high-throughput data can be
translated into new knowledge and information. In addition to modifying genetic
components of the cell, a systems-level analysis of what these modifications will do to the
physiology of the cell is necessary to allow the cell to optimally perform the task for which
is has been engineered.
Acknowledgments
This work was supported by the Technology Development Program to Solve Climate Changes on Systems
Metabolic Engineering for Biorefineries (NRF-2012-C1AAA001-2012M1A2A2026556) of the Ministry of Education,
Science and Technology (MEST) through the National Research Foundation (NRF). Further support by the
Intelligent Synthetic Biology Center (2011-0031963) of the Global Frontier Project and the World Class University
Program (R32-2009-000-10142-0) of MEST through the NRF is appreciated.
References
1. Cho A, Yun H, Park JH, Lee SY, Park S. Prediction of novel synthetic pathways for the production of desired
chemicals. BMC Syst Biol . 2010;4:35.
2. Hatzimanikatis V, Li C, Ionita JA, Henry CS, Jankowski MD, Broadbelt LJ. Exploring the diversity of complex
metabolic networks. Bioinformatics . 2005;21(8):1603
1609.
3. Clancy K, Voigt CA. Programming cells: towards an automated
Curr Opin Biotechnol .
'
Genetic Compiler.
'
581.
4. Khalil AS, Collins JJ. Synthetic biology: applications come of age. Nat Rev Genet . 2010;11(5):367
2010;21(4):572
379.
5. Medema MH, van Raaphorst R, Takano E, Breitling R. Computational tools for the synthetic design of
biochemical pathways. Nat Rev Microbiol . 2012;10(3):191
202.
6. Lee JW, Kim TY, Jang YS, Choi S, Lee SY. Systems metabolic engineering for chemicals and materials. Trends
Biotechnol . 2011;29(8):370
154
378.
7. Batt G, Yordanov B, Weiss R, Belta C. Robustness analysis and tuning of synthetic gene networks. Bioinformatics .
2007;23(18):2415 2422.
8. Kim J, Winfree E. Synthetic in vitro transcriptional oscillators. Mol Syst Biol . 2011;7:465.
9. Choi HS, Lee SY, Kim TY, Woo HM. In silico identification of gene amplification targets for improvement of
lycopene production. Appl Environ Microbiol . 2010;76(10):3097 3105.
10. Henry CS, Broadbelt LJ, Hatzimanikatis V. Discovery and analysis of novel metabolic pathways for the
biosynthesis of industrial chemicals: 3-hydroxypropanoate. Biotechnol Bioeng . 2010;106(3):462 473.
11. Park JH, Lee KH, Kim TY, Lee SY. Metabolic engineering of Escherichia coli for the production of L-valine based
on transcriptome analysis and in silico gene knockout simulation. Proc Natl Acad Sci USA . 2007;104
(19):7797 7802.
12. Carbonell P, Planson AG, Fichera D, Faulon JL. A retrosynthetic biology approach to metabolic pathway design
for therapeutic production. BMC Syst Biol . 2011;5:122.
13. Tabor JJ, Salis HM, Simpson ZB, et al. A synthetic genetic edge detection program. Cell . 2009;137
(7):1272
1281.
14. Basu S, Gerchman Y, Collins CH, Arnold FH, Weiss R. A synthetic multicellular system for programmed pattern
formation. Nature . 2005;434(7037):1130
1134.
15. Friedland AE, Lu TK, Wang X, Shi D, Church G, Collins JJ. Synthetic gene networks that count. Science .
2009;324(5931):1199
1202.
16. Pedersen M, Phillips A. Towards programming languages for genetic engineering of living cells. J R Soc Interface .
2009;6(Suppl 4):S437
S450.
17. Sharma V, Nomura Y, Yokobayashi Y. Engineering complex riboswitch regulation by dual genetic selection.
J Am Chem Soc . 2008;130(48):16310
16315.
18. Beisel CL, Bayer TS, Hoff KG, Smolke CD. Model-guided design of ligand-regulated RNAi for programmable
control of gene expression. Mol Syst Biol . 2008;4:224.
19. Salis HM, Mirsky EA, Voigt CA. Automated design of synthetic ribosome binding sites to control protein
expression. Nat Biotechnol . 2009;27(10):946 950.
Search WWH ::




Custom Search