Team:Virginia Commonwealth/Literature

From 2009.igem.org

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==Synthetic Biology Papers==
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Below is a compilation of papers and articles relevant to iGEM, synthetic biology and metabolic pathway engineering.
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===Introductions===
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<br />
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*[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html <font color="#000000">Adventures in Synthetic Biology</font>] a comic by [[User:Endy| <font color="#000000">Drew Endy</font>]]
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==Introductions==
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*[http://www.etcgroup.org/en/materials/publications.html?id=602 <font color="#000000">Extreme genetic engineering: An introduction to synthetic biology</font>]
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*[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html <font color="#000000">'''Adventures in synthetic biology'''</font>] a comic by [[User:Endy| <font color="#000000">Drew Endy</font>]]
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*[http://www.economist.com/business/displaystory.cfm?story_id=7854314<font color="#000000">''Life 2.0'' Economist article</font>]
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*[http://www.etcgroup.org/en/materials/publications.html?id=602 <font color="#000000">'''Extreme genetic engineering: an introduction to synthetic biology'''</font>] by the ETC Group
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*[http://www.msnbc.msn.com/id/18882828/site/newsweek/page/0/<font color="#000000">''Life 2.0'' Newsweek article</font>]
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*[http://www.synbiosafe.eu/uploads///pdf/SciAm_BioFab_2006_06.pdf <font color="#000000">'''Engineering life: building a FAB for biology'''</font>]
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===Foundations===
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*[http://ieeexplore.ieee.org/stamp/stamp.jsp?arnumber=04290608 <font color="#000000">'''The iGEM competition: building with biology'''</font>] by James Brown
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*[http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html <font color="#000000">A synthetic oscillatory network of transcriptional regulators</font>] by Michael B. Elowitz and Stanislas Leibler
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*[http://www.nature.com/nchembio/journal/v3/n9/full/nchembio0907-521.html <font color="#000000">'''Synthetic biology: lessons from the history of synthetic organic chemistry'''</font>]
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*[http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html <font color="#000000">Construction of a genetic toggle switch in ''Escherichia coli''</font>] by James J. Collins ''et al''
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*[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 <font color="#000000">'''Systems biology as a foundation for genome-scale synthetic biology'''</font>] by B. Palsson ''et al.''
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*[http://dspace.mit.edu/handle/1721.1/21168 <font color="#000000">Biobricks</font>] by Tom Knight
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<br />
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*[http://www.nature.com/nature/journal/v438/n7067/abs/nature04342.html;jsessionid=3E7E09FF4E647671DF79F2A37BC3632F <font color="#000000">Foundations for engineering biology</font>] by Drew Endy
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==Implications==
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===Perspectives===
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*[http://www.nature.com/nbt/journal/v25/n6/pdf/nbt0607-627.pdf <font color="#000000">'''DNA synthesis and biological security'''</font>]
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*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17251159&ordinalpos=2&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum <font color="#000000">Biology by Design</font>] by You ''et al''
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*[http://www.thenewatlantis.com/docLib/TNA12-TuckerZilinskas.pdf <font color="#000000">'''The promise and perils of synthetic biology'''</font>] by J. Tucker and R. Zilinskas
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*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KWTFBB-3&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=55327bdfbda5081b078808963c8a92b6 <font color="#000000">Genetic parts to program bacteria</font>] by Chris Voigt
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<br />
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*[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 <font color="#000000">Systems biology as a foundation for genome-scale synthetic biology</font>] by B. Palsson ''et al''
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==Frameworks==
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*[http://www3.interscience.wiley.com/cgi-bin/abstract/112633378/ABSTRACT?CRETRY=1&SRETRY=0 <font color="#000000">A perspective of synthetic biology: Assembling building blocks for novel functions</font>] by Patrick Fu
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*[http://www.nature.com/nature/journal/v438/n7067/abs/nature04342.html;jsessionid=3E7E09FF4E647671DF79F2A37BC3632F <font color="#000000">'''Foundations for engineering biology'''</font>] by Drew Endy
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===Current Research===
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*[http://www.nature.com/nbt/journal/v26/n7/full/nbt1413.html <font color="#000000">'''Refinement and standardization of synthetic biological parts and devices'''</font>]
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*[http://www.nature.com/nchembio/journal/v2/n12/abs/nchembio836.html;jsessionid=EFAF8B58DDCC1CB3D2EB61B11223039B <font color="#000000">Production of isoprenoid pharmaceuticals by engineered microbes</font>] by Jay Keasling ''et al''
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*[http://www.jbioleng.org/content/3/1/4 <font color="#000000">'''Measuring the activity of BioBrick promoters using an in vivo reference standard'''</font>]
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*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17239639&ordinalpos=12&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum<font color="#000000">Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli</font>] by Jay Keasling ''et al''
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*[http://www.jbioleng.org/content/2/1/5 <font color="#000000">'''Engineering BioBrick vectors from BioBrick parts'''</font>] by Reshma Shetty ''et al.''
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*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WK7-4HJRXGD-4&_user=709071&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=cac1dbad4022f85af3724a9ba787d3dd <font color="#000000">Environmentally Controlled Invasion of Cancer Cells by Engineered Bacteria</font>] by Chris Voigt ''et al''
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*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17251159&ordinalpos=2&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum <font color="#000000">'''Biology by design: reduction and synthesis of cellular components and behaviour'''</font>] by You ''et al.''
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===Implications===
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*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KWTFBB-3&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=55327bdfbda5081b078808963c8a92b6 <font color="#000000">'''Genetic parts to program bacteria'''</font>] by Chris Voigt
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*[http://www.nature.com/nbt/journal/v25/n6/pdf/nbt0607-627.pdf<font color="#000000">DNA synthesis and biological security</font>]
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*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VS2-4TX12FT-1&_user=709070&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039639&_version=1&_urlVersion=0&_userid=709070&md5=9a7b6f98545b46524dd3e2b938d4c75e <font color="#000000">'''Toward scalable parts families for predictable design of biological circuits'''</font>] by Julius Lucks ''et al.''
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==Metabolic Engineering Papers==
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*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TCW-4TT9VX3-4&_user=709070&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039639&_version=1&_urlVersion=0&_userid=709070&md5=4c35b760f4d7e0a0483e26822771723c <font color="#000000">'''Engineering microbes with synthetic biology frameworks'''</font>]
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===Synthetic Metabolism===
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<br />
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===Artemisinin Project===
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==Technologies==
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*[http://dspace.mit.edu/handle/1721.1/21168 <font color="#000000">'''Idempotent Vector Design for Standard Assembly of Biobricks'''</font>] by Tom Knight
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<br />
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==Applications==
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*[http://pubs.acs.org/doi/abs/10.1021/cb7002434 <font color="#000000">'''Synthetic biology for synthetic chemistry'''</font>] by Jay Keasling
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<br />
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==Projects==
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*[http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html <font color="#000000">'''A synthetic oscillatory network of transcriptional regulators'''</font>] by Michael B. Elowitz and Stanislas Leibler
 +
*[http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html <font color="#000000">'''Construction of a genetic toggle switch in ''Escherichia coli'''''</font>] by James J. Collins ''et al.''
 +
*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WK7-4HJRXGD-4&_user=709071&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=cac1dbad4022f85af3724a9ba787d3dd <font color="#000000">'''Environmentally controlled invasion of cancer cells by engineered bacteria'''</font>] by Chris Voigt ''et al.''
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====Artemisinin project====
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*[http://www.nature.com/nchembio/journal/v2/n12/abs/nchembio836.html;jsessionid=EFAF8B58DDCC1CB3D2EB61B11223039B <font color="#000000">'''Production of isoprenoid pharmaceuticals by engineered microbes'''</font>] by Jay Keasling ''et al.''
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*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17239639&ordinalpos=12&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum<font color="#000000">'''Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli'''</font>] by Jay Keasling ''et al.''
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<br />

Latest revision as of 21:11, 9 June 2009

Below is a compilation of papers and articles relevant to iGEM, synthetic biology and metabolic pathway engineering.

Introductions

  • [http://www.nature.com/nature/comics/syntheticbiologycomic/index.html Adventures in synthetic biology] a comic by Drew Endy
  • [http://www.etcgroup.org/en/materials/publications.html?id=602 Extreme genetic engineering: an introduction to synthetic biology] by the ETC Group
  • [http://www.synbiosafe.eu/uploads///pdf/SciAm_BioFab_2006_06.pdf Engineering life: building a FAB for biology]
  • [http://ieeexplore.ieee.org/stamp/stamp.jsp?arnumber=04290608 The iGEM competition: building with biology] by James Brown
  • [http://www.nature.com/nchembio/journal/v3/n9/full/nchembio0907-521.html Synthetic biology: lessons from the history of synthetic organic chemistry]
  • [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 Systems biology as a foundation for genome-scale synthetic biology] by B. Palsson et al.


Implications

  • [http://www.nature.com/nbt/journal/v25/n6/pdf/nbt0607-627.pdf DNA synthesis and biological security]
  • [http://www.thenewatlantis.com/docLib/TNA12-TuckerZilinskas.pdf The promise and perils of synthetic biology] by J. Tucker and R. Zilinskas


Frameworks

  • [http://www.nature.com/nature/journal/v438/n7067/abs/nature04342.html;jsessionid=3E7E09FF4E647671DF79F2A37BC3632F Foundations for engineering biology] by Drew Endy
  • [http://www.nature.com/nbt/journal/v26/n7/full/nbt1413.html Refinement and standardization of synthetic biological parts and devices]
  • [http://www.jbioleng.org/content/3/1/4 Measuring the activity of BioBrick promoters using an in vivo reference standard]
  • [http://www.jbioleng.org/content/2/1/5 Engineering BioBrick vectors from BioBrick parts] by Reshma Shetty et al.
  • [http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17251159&ordinalpos=2&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum Biology by design: reduction and synthesis of cellular components and behaviour] by You et al.
  • [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KWTFBB-3&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=55327bdfbda5081b078808963c8a92b6 Genetic parts to program bacteria] by Chris Voigt
  • [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VS2-4TX12FT-1&_user=709070&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039639&_version=1&_urlVersion=0&_userid=709070&md5=9a7b6f98545b46524dd3e2b938d4c75e Toward scalable parts families for predictable design of biological circuits] by Julius Lucks et al.
  • [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TCW-4TT9VX3-4&_user=709070&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039639&_version=1&_urlVersion=0&_userid=709070&md5=4c35b760f4d7e0a0483e26822771723c Engineering microbes with synthetic biology frameworks]


Technologies

  • [http://dspace.mit.edu/handle/1721.1/21168 Idempotent Vector Design for Standard Assembly of Biobricks] by Tom Knight


Applications

  • [http://pubs.acs.org/doi/abs/10.1021/cb7002434 Synthetic biology for synthetic chemistry] by Jay Keasling


Projects

  • [http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html A synthetic oscillatory network of transcriptional regulators] by Michael B. Elowitz and Stanislas Leibler
  • [http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html Construction of a genetic toggle switch in Escherichia coli] by James J. Collins et al.
  • [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WK7-4HJRXGD-4&_user=709071&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=cac1dbad4022f85af3724a9ba787d3dd Environmentally controlled invasion of cancer cells by engineered bacteria] by Chris Voigt et al.

Artemisinin project

  • [http://www.nature.com/nchembio/journal/v2/n12/abs/nchembio836.html;jsessionid=EFAF8B58DDCC1CB3D2EB61B11223039B Production of isoprenoid pharmaceuticals by engineered microbes] by Jay Keasling et al.
  • [http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17239639&ordinalpos=12&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSumBalancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli] by Jay Keasling et al.


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