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iGEM 2005 - The summer 2005 intercollegiate Genetically Engineered Machine competition. http://www.natashas.info/index2286.html http://www.natashas.info/index2299.html http://www.natashas.info/index2333.html http://www.natashas.info/index2379.html http://www.natashas.info/index2396.html http://www.natashas.info/index2411.html http://www.natashas.info/index2444.html http://www.natashas.info/index2451.html http://www.natashas.info/index2522.html http://www.natashas.info/index2530.html http://www.natashas.info/index2535.html http://www.natashas.info/index2598.html http://www.natashas.info/index2603.html http://www.natashas.info/index2642.html http://www.natashas.info/index2684.html http://www.natashas.info/index2686.html http://www.natashas.info/index2781.html http://www.natashas.info/index2790.html http://www.natashas.info/index2798.html http://www.natashas.info/index2861.html http://www.natashas.info/index287.html http://www.natashas.info/index2898.html 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Contents

Participating Schools

Berkeley [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Berkeley Parts] Caltech [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Caltech Parts] [http://www.cds.caltech.edu/~murray/synbio/wiki/index.php WIKI]
Cambridge [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Cambridge Parts] Davidson [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Davidson Parts]
ETH Zurich [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_ETHZ Parts] WIKI Harvard [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Harvard Parts] [http://karma.med.harvard.edu/wiki/iGEM_2005 WIKI]
[http://model.mit.edu/igem/index.php?title=People MIT] [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_MIT Parts] [http://model.mit.edu/igem WIKI] Oklahoma [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Oklamhoma Parts]
Penn State [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Penn_State Parts] Princeton [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Princeton Parts] [http://ehukai.ee.princeton.edu/wi/index.php WIKI]
Toronto [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Toronto Parts] UCSF [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_UCSF Parts]
UT Austin [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_UTAustin Parts] [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Registry Registry Parts]

Events

Papers for Students to Read

General Review Papers

  • A. Malcolm Campbell. 2005. Meeting Report: Synthetic Biology Jamboree for Undergraduates. Cell Biology Education. 4: 19 - 23. (Meeting Report for 2004 Jamboree) [http://www.cellbioed.org/pdf/04-11-0047.pdf URL]
  • Dan Ferber. 2004. Microbes Made to Order. Science. Vol. 303: 158 - 161. (Good general overview), [http://www.sciencemag.org/cgi/content/full/303/5655/158 URL]
  • Jeff Hasty, David McMillen, and J. J. Collins. 2002. Engineered Gene Circuits. Nature. Vol. 420: 224 - 230. (Scholarly Review Paper), [http://www.nature.com/nature/journal/v420/n6912/abs/nature01257_fs.html URL]
  • Philip Ball. 2004. Starting from Scratch. Nature. Vol. 431: 624 - 626. (OK general overview), [http://www.nature.com/news/2004/041004/pf/431624a_pf.html URL]
  • Editors of Nature. 2004. Futures of Artificial Life. Nature. Vol. 431: 613. (Editorial that addresses ethical considerations), [http://www.bio.davidson.edu/courses/synthetic/papers/Synthetic_Editorial.pdf URL]

Research Papers in Synthetic Biology

  • Timothy S. Gardner, Charles R. Cantor, and James J. Collins. 2000. Construction of a genetic toggle switch in Escherichia coli. Nature. Vol. 403. 339 - 342. (Bistable gene regulatory network, toggled by transient chemical or thermal induction, to serve as cellular memory)
  • Robert T. Batey, Sunny D. Gilbert, and Rebecca K. Montange. 2004. Structure of a Natural Guanine-responsive Riboswitch Complexed with a Metabolite Hypoxanthine. Nature. Vol. 432. 411 - 415. (Distinguishes Riboswitches from Aptamers and Antiswitches; also shows 3D structure of aptamer and ligand)
  • News Summary of Batey et al. 2004. (Batey et al., paper above)
  • Laising Yen et al. 2004. Exogenous Controlof Mammalian Gene Expression through Modulation of RNA Self-cleavage. Nature. Vol. 431: 471 - 476. (mRNA-mediated regulation of translation)
  • Yina Kuang, Israel Biran, and David R. Walt. 2004. Simultaneously Monitoring Gene Expression Kinetics and Genetic Noise in Single Cells by Optical Well Arrays. Analytical Chemistry. Vol. 76: 6282 - 6286. (Analysis of two promoters)
  • Thomas Bulter, Sun-Gu Lee, Wilson WaiChun Wong, Eileen Fung, Michael R. Conner, and James C. Liao. 2004. Design of artificial cell-cell communication using gene and metabolic networks. PNAS. 101(8): 2299-2304. (Quorum sensor using acetate signal)
  • Hideki Kobayashi, Mads Kaern, Michihiro Araki, Kristy Chung, Timothy S. Gardner, Charles R. Cantor, and James J. Collins. Programmable cells: Interfacing natural and engineered gene networks. PNAS. 101(22): 8414-8419. (Toggle switch interfaced with 1) SOS signaling pathway for DNA damage response and 2) quorum sensing signalling pathway)
  • Sara Hooshangi, Stephan Thiberge, and Ron Weiss. 2005. Ultrasensitivity and noise propagation in a synthetic transcriptional cascade. PNAS. 102(10): 3581–3586. (Basic Research Paper)
  • Bayer, Travis S. and Christina D . Smolke. 2005. Programmable ligand-controlled riboregulators of eukaryotic gene expression. Nature Biotechnology. 23 (3): 337 - 343. (Antiswithces that turn off or on mRNA translation, regulated by amptamer binding ligands)
  • Isaacs, Farren J. and James J. Collins. 2005. Plug-and-play with RNA. Nature Biotechnology. 23 (3): 306 -307. (Commentary on Bayer & Smolke, 2005.)
  • Subhayu Basu, Yoram Gerchman, Cynthia H. Collins, Frances H. Arnold and Ron Weiss. 2005. A synthetic multicellular system for programmed pattern formation. Nature. Vol. 434:1130-1134 (Cool patterns, seeded with senders, with receivers responding to chemical gradients) [http://www.nature.com/nature/journal/v434/n7037/abs/nature03461.html URL]

Mathematical Modeling in Synthetic Biology

  • Hasty J, McMillen D, Isaacs F, Collins JJ. 2001. Computational studies of gene regulatory networks: in numero molecular biology. Nat Rev Genet. 2001 Apr;2(4):268-79.
  • Guet, Călin C., Elowitz, Michael B., Hsing, Weihong, Leibler, Stanislas Combinatorial Synthesis of Genetic Networks Science 2002 296: 1466-1470

Possible Fun Groups

  1. Awards Panel
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  3. Editorial Board
  4. Standards of Practice
  5. iGEM 2006 Planning
  6. Others (Publicity?)

Resources

  1. Blue Heron Point of Contact
  2. Part Nicknames
  3. Lab Protocols

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Funding

iGEM is an initiative of the MIT [http://icampus.mit.edu/ iCampus] program, which is funded by Microsoft Corp. iCampus sponsors faculty innovations in educational technology, helps incubate them through classroom use, and promotes their adoption, evaluation and continued evolution through worldwide multi-institutional cooperation.

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