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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==Videos==
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'''Research Papers'''
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Below you will find our favorite videos on synthetic biology, iGEM, and other interesting topics.
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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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<u>Foundations</u>
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* A quick how-to style film by the 2009 Southampton team. It covers what new teams can expect from iGEM, both the good and the bad.
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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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<object width="500" height="405"><param name="movie" value="http://www.youtube.com/v/FRijFX0BpGI&hl=en_US&fs=1&border=1"></param><param name="allowFullScreen" value="true"></param><param name="allowscriptaccess" value="always"></param><embed src="http://www.youtube.com/v/FRijFX0BpGI&hl=en_US&fs=1&border=1" type="application/x-shockwave-flash" allowscriptaccess="always" allowfullscreen="true" width="500" height="405"></embed></object>
 
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* It wouldn't be an emerging field without a few child prodigies on the scene.  Gabriel See's work with the [http://2009.igem.org/Team:Washington-Software/Project Washington University Team] to make a LEGO Liquid Handling Robot is mind-blowing, inspiring stuff.  There's also a hilarious moment 55 seconds into [http://www.youtube.com/watch?v=wcKZaPAhioQ this Youtube video], when a reporter talks about Gabriel being able to understand "nucleotide sequences ... whatever they are".  You'll laugh and cry at the same time.
 
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<u>Bacterial Social Communication</u>
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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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<object width="400" height="300"><param name="allowfullscreen" value="true" /><param name="allowscriptaccess" value="always" /><param name="movie" value="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" /><embed src="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" type="application/x-shockwave-flash" allowfullscreen="true" allowscriptaccess="always" width="400" height="300"></embed></object>
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* The Biobrick trophy-holding [http://2009.igem.org/Team:Cambridge Cambridge 2009 Team] developed a color pigment generating strain of '''E.coli''' that was activated by the presence of a variable molecule, and it could 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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<u>Energy</u>
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<object width="660" height="405"><param name="movie" value="http://www.youtube.com/v/EtADBcxWpVg&hl=en_US&fs=1&border=1"></param><param name="allowFullScreen" value="true"></param><param name="allowscriptaccess" value="always"></param><embed src="http://www.youtube.com/v/EtADBcxWpVg&hl=en_US&fs=1&border=1" type="application/x-shockwave-flash" allowscriptaccess="always" allowfullscreen="true" width="660" height="405"></embed></object>
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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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* Eric Ma delivers a magnificent introduction to the field.  He has a knack for avoiding talking over a newcomer's head and still conveying the power of synthetic biology.  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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* 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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<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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* An animation of DNA transcription and translation.  Second in its beauty only to [http://www.youtube.com/watch?v=Mszlckmc4Hw Inner Life of a Cell].
 
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'''Protocols'''
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==Links==
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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