IGEM:The Citadel/Resources

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!align="center"|[[IGEM:The_Citadel/Events|Events]]
!align="center"|[[IGEM:The_Citadel/Events|Events]]
!align="center"|[[IGEM:The_Citadel/Resources|Resources]]
!align="center"|[[IGEM:The_Citadel/Resources|Resources]]
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!align="center"|[[IGEM:The_Citadel/Multimedia|Multimedia]]
!align="center"|[[IGEM:The_Citadel/Contact|Contact Us]]
!align="center"|[[IGEM:The_Citadel/Contact|Contact Us]]
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==Protocols==
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'''Research Papers'''
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''Can't get to something below?  The world is not yet your oyster - restricted access is still alive and well in certain circles.  If you can't find a paper listed below, shoot me '''[[User:Brian D. Burnley|Brian D. Burnley]] 05:52, 9 April 2010 (EDT)''': an email.''
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==Links==
 
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A library of videos on synthetic biology, iGEM, and other topics.
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<u>Foundations</u>
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* Here's a video by the 2009 Southampton team that covers what a new team can expect from iGEMIt presents the good ... and the bad. Very informative!
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* Elowitz, Michael. [http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html A synthetic oscillatory network of transcriptional regulators.]
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* Gardner, Timothy. [http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html Construction of a genetic toggle switch in Escherichia coli.]
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* Tabor, Jeffrey[http://www.cell.com/retrieve/pii/S0092867409005091 A synthetic genetic edge detection program.]
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* Knight, Tom. [http://web.mit.edu/synbio/release/docs/biobricks.pdf Idempotent Vector Design for Standard Assembly of Biobricks.]
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* Kelly, Jason. [http://www.jbioleng.org/content/3/1/4 Measuring the activity of BioBrick promoters using an in vivo reference standard.]
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: http://www.youtube.com/v/13SVRfxGZko&hl=en_US&fs=1&border=1
 
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* You can always tell the strength of an emerging field by the quality of child prodigies that arrive on scene.  Check out Gabriel See's work with the [http://2009.igem.org/Team:Washington-Software/Project Washington University Team] to make a LEGO Liquid Handling Robot.  It's mind-blowing stuff.  There's also a hilarious moment 55 seconds into [http://www.youtube.com/watch?v=wcKZaPAhioQ this Youtube video], when the reporter talks about Gabriel being able to understand "nucleotide sequences ... whatever they are".  It made me laugh and cry at the same time.
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<u>Bacterial Social Communication</u>
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: http://www.youtube.com/v/FRijFX0BpGI&hl=en_US&fs=1&border=1
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* Danino, Tal. [http://www.nature.com/nature/journal/v463/n7279/full/nature08753.html A synchronized quorum of genetic clocks.]
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* The [http://2009.igem.org/Team:Cambridge Cambridge Team] won top prize at iGEM 2009.  They developed a color pigment generating strain of //E.coli// that was activated by the presence of a variable , and it could even be tuned to different sensitivities of that compound.  The team worked with an artistic designer to come up with an interesting future use for their project...
 
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: http://vimeo.com/moogaloop.swf?clip_id=7453836&amp;server=vimeo.com&amp;show_title=1&amp;show_byline=1&amp;show_portrait=0&amp;color=&amp;fullscreen=1
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<u>Energy</u>
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* This beautifully shot and edited video article centers on the legendary Stanford/MIT professor, Drew Endy.
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* Feng, Xueyang. [http://aem.asm.org/cgi/content/full/75/15/5001 Characterization of the Central Metabolic Pathways in Thermoanaerobacter  sp. Strain X514 via Isotopomer-Assisted Metabolite Analysis]
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: http://www.youtube.com/v/EtADBcxWpVg&hl=en_US&fs=1&border=1
 
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* Eric Ma delivers one of the best introductions to our field that I've yet found.  He has a real knack for talking in terms anyone can grasp and his passion for iGEM is very infectious.  Eric was a member of the [http://2009.igem.org/Team:British_Columbia 2008 team from the University of British Columbia].
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<u>Technology</u>
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: http://www.youtube.com/v/LEG4W_4HwYw&hl=en_US&fs=1&border=1
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* Wang, Harris. [http://www.nature.com/nature/journal/v460/n7257/full/nature08187.html Programming cells by multiplex genome engineering and accelerated evolution.]
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* This is the first part of a debate between Drew Endy and Jim Thomas on the ethics of synthetic biology.  The whole thing is availible at the [http://www.longnow.org/ Long Now Foundation's website].  Thought-provoking!
 
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: http://www.youtube.com/v/Fv0hV-gWwGY&hl=en_US&fs=1&border=1
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<u>''In Silico''</u>
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* Here's the 2008 iGEM competition being covered by PBS's //News Hour//.  Quite good for a mainstream media report.
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* Villalobos, Alan. [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1523223/ Gene Designer: a synthetic biology tool for constructing artificial DNA segments]
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: http://www.youtube.com/v/-IIWH6Hhcnc&hl=en_US&fs=1&border=1
 
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* This one is almost as good as the [http://www.youtube.com/watch?v=Mszlckmc4Hw Inner Life of a Cell] video.
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'''Protocols'''
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: http://www.youtube.com/v/41_Ne5mS2ls&hl=en_US&fs=1&border=1
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* [http://ginkgobioworks.com/support/ 3A Biobrick Assembly]
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* [http://ginkgobioworks.com/files/FooCampersGuide.pdf The Foo Camper's Guide to Biological Engineering]
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* [[IGEM:The_Citadel/Electrocompetent_Cells| The Citadel's Preparing Electrocompetent Cells]]
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* [[IGEM:The_Citadel/PCR_Protocol| The Citadel's PCR Protocol]]
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'''Important Links'''
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* [http://2010.igem.org/Main_Page| 2010 iGEM Competition]
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* [http://partsregistry.org/Main_Page| Parts Registry]
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'''Tools'''
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* [http://www.ncbi.nlm.nih.gov/ National Center for Biotechnology Information]
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* [http://www.biology.utah.edu/jorgensen/wayned/ape/ Plasmid Editor]
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* [http://ws.g-language.org/g4/ Pathway Projector]
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* [http://www.cbs.dtu.dk/services/NetNGlyc/ N-Glycosylation Predictor]
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'''Tutorials & Lessons'''
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* [[Arking:JCAOligoTutorialHome| Excellent Tutorial Series on the Foundations of SynBio]]
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* [http://2009.igem.org/Instructional_Videos| iGEM Instructional Videos]
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* [http://partsregistry.org/Help:Contents| Everything You Want to Know About BioBricks]
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* [[Searching_the_literature| A Guide to Searching the Literature]]
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'''Blogs'''
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* [http://scienceblogs.com/oscillator/ Oscillator] by [[User:ChristinaAgapakis| Christina Agapakis]]
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* [http://blog.ginkgobioworks.com/ Ginkgoo] by the MIT guys and gal at [http://ginkgobioworks.com/ Ginkgo Bioworks]
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* [http://www.synthesis.cc/ Synthesis] by Rob Carlson, offers a little Moore.
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* [http://adambluestein.com/ Adam Bluestein] is following SynBio intently.
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* [http://diybio.org/ DIYbio], a Mecca of OpenSource Science.

Current revision

Home Team Project Notebook Events Resources Multimedia Contact Us

Research Papers

Can't get to something below? The world is not yet your oyster - restricted access is still alive and well in certain circles. If you can't find a paper listed below, shoot me Brian D. Burnley 05:52, 9 April 2010 (EDT): an email.


Foundations


Bacterial Social Communication


Energy


Technology


In Silico


Protocols

Important Links


Tools


Tutorials & Lessons


Blogs

Personal tools