CHE.496/2008/Assignments: Difference between revisions
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# '''Systems biology as a foundation for genome-scale synthetic biology [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KPX8RY-1&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=7a316893fbee50cab2742cc3b6de73b4 link] | # '''Systems biology as a foundation for genome-scale synthetic biology [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KPX8RY-1&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=7a316893fbee50cab2742cc3b6de73b4 link] | ||
# '''From systems biology to synthetic biology | # '''From systems biology to synthetic biology [http://www.nature.com/msb/journal/v1/n1/full/msb4100007.html link] | ||
# '''Modular approaches to expanding the functions of living matter | # '''Modular approaches to expanding the functions of living matter [http://www.nature.com/nchembio/journal/v2/n6/abs/nchembio789.html link] | ||
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====Assignment 17: Computational Biology==== | ====Assignment 17: Computational Biology==== | ||
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# '''Modelling cellular behaviour | # '''Modelling cellular behaviour [http://www.nature.com/nature/journal/v409/n6818/abs/409391a0.html link] | ||
# '''Bioinformatics analysis for genome design and synthetic biology | # '''Bioinformatics analysis for genome design and synthetic biology [http://ieeexplore.ieee.org/Xplore/login.jsp?url=/iel5/10363/32966/01544358.pdf link] | ||
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====Assignment 18: Biological networks==== | ====Assignment 18: Biological networks==== | ||
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# '''Biological networks | # '''Biological networks [http://www.ecs.umass.edu/~mettu/ece697s/papers/systems%20biology/biological%20networks.pdf link] | ||
# '''Programming and engineering biological networks | # '''Programming and engineering biological networks [http://lib.bioinfo.pl/pmid:16842994 link] | ||
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====Assignment 19: Metabolic modeling==== | ====Assignment 19: Metabolic modeling==== | ||
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# '''Use of genome-scale microbial models for metabolic engineering | # '''Use of genome-scale microbial models for metabolic engineering [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4B7YPJB-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=5a4f561f1c766eca10ec53e1ab9223be link] | ||
# '''Microbial regulatory and metabolic networks | # '''Microbial regulatory and metabolic networks [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4PGXF5M-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=1df4f4d6151384eac22f5b5f37ad7d43 link] | ||
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====Assignment 20: RNA synthetic biology==== | ====Assignment 20: RNA synthetic biology==== | ||
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# '''RNA synthetic biology | # '''RNA synthetic biology [http://www.bu.edu/abl/files/naturebiotech_isaacs.pdf link] | ||
# '''RNA and RNP as new molecular parts in synthetic biology | # '''RNA and RNP as new molecular parts in synthetic biology [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T3C-4PCGRPV-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=59ffbe8c79641a38cdf9d39750e8a7ae link] | ||
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====Assignment 21: The future of synthetic biology==== | ====Assignment 21: The future of synthetic biology==== | ||
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# '''Synthetic biology: Navigating the challenges ahead | # '''Synthetic biology: Navigating the challenges ahead [http://openwetware.org/images/0/02/Aj_bhutkar_synth_bio_jbb_2005.pdf link] | ||
# '''Economics of synthetic biology [http://www.nature.com/msb/journal/v3/n1/full/msb4100161.html link] | # '''Economics of synthetic biology [http://www.nature.com/msb/journal/v3/n1/full/msb4100161.html link] | ||
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Revision as of 21:04, 12 January 2008
Assigned Readings
Assignment 1: Synthetic biology overview
Assignment 2: Foundational technologies
- Foundations for engineering biology link
- Synthetic biology: promises and challenges link
- The iGEM competition: building with biology link
Assignment 3: Engineering principles
- Synthetic biology - putting engineering into biology link
- Synthetic biology: new engineering rules for an emerging discipline link
Assignment 4: Genetic programming
- Idempotent vector design for standard assembly of biobricks link
- Genetic parts to program bacteria link
Assignment 5: Natural biological parts
- Another side of genomics: Synthetic biology as a means for the exploitation of whole-genome sequence information link
- Codon bias and heterologous protein expression link
Assignment 6: Practical applications
- Advances in synthetic biology: on the path from prototypes to applications link
- Molecular switches for cellular sensors link
Assignment 7: Social implications
Assignment 8: Engineering biology
Assignment 9: Biological machines
- Designing biological systems link
- Biology by design: Reduction and synthesis of cellular components and behavior link
Assignment 10: Minimal genomes
Assignment 11: Minimal cells
Assignment 12: Genetic circuit engineering
- A synthetic oscillatory network of transcriptional regulators link
- Construction of a genetic toggle switch in Escherichia coli link
Assignment 13: Genetic circuit engineering
- Environmentally controlled invasion of cancer cells by engineered bacteria link
- Environmental signal integration by a modular AND gate link
Assignment 14: Metabolic pathway engineering
- Bioengineering novel in vitro metabolic pathways using synthetic biology link
- Production of the antimalarial drug precursor artemisinic acid in engineered yeast link
Assignment 15: Systems biology
- The evolution of molecular biology into systems biology link
- Integrating 'omic information: A bridge between genomics and systems biology link
Assignment 16: Systems biology and synthetic biology
- Systems biology as a foundation for genome-scale synthetic biology link
- From systems biology to synthetic biology link
- Modular approaches to expanding the functions of living matter link
Assignment 17: Computational Biology
- Modelling cellular behaviour link
- Bioinformatics analysis for genome design and synthetic biology link
Assignment 18: Biological networks
Assignment 19: Metabolic modeling
- Use of genome-scale microbial models for metabolic engineering link
- Microbial regulatory and metabolic networks link
Assignment 20: RNA synthetic biology
Assignment 21: The future of synthetic biology