Team:Illinois/Protocols

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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="90%" align="center"
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__NOTOC__
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!align="center"|[[Team:Illinois|Home]]
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<html>
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!align="center"|[[Team:Illinois/Team|The Team]]
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<head>
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!align="center"|[[Team:Illinois/Project|The Project]]
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<style>
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!align="center"|[[Team:Illinois/Parts|Parts Submitted to the Registry]]
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!align="center"|[[Team:Illinois/Modeling|Modeling]]
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!align="center"|[[Team:Illinois/Research_articles|Research Articles]]
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!align="center"|[[Team:Illinois/Notebook|Notebook]]
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!align="center"|[[Team:Illinois/Current_Tasks|Current Tasks]]
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==Current Tasks and Subgroup Status==
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===Yeast Culture===
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    <td align="center" ><a class="mainLinks" href="https://2008.igem.org/Team:Illinois" >Home</a> </td>
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==General Molecular Biology==
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'''A great textbook called [http://www.mrw.interscience.wiley.com/emrw/9780471142720/cp/cpmb/toc Current Protocols in Molecular Biology] available entirely online contains protocols for pretty much any molecular biology technique- great resource.'''
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==Polymerase Chain Reaction, Plasmids, and Recombinant DNA==
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PCR is the foundation for everything we will do ever. Below are some links on the basic principles and practice of pcr and related important topics; as we begin our own protocols those specific steps will be recorded here.
 +
 
 +
I would start [http://www.youtube.com/watch?v=x5yPkxCLads here] for a nice intro to the historical context of PCR.
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The [http://en.wikipedia.org/wiki/PCR wikipedia page on PCR] is good; I would skip the sections on 'variants' and history. Also their page on [http://en.wikipedia.org/wiki/Molecular_cloning cloning genes into cells] is good, and [http://en.wikipedia.org/wiki/Subcloning subcloning], all of which we'll probably end up using. And [http://en.wikipedia.org/wiki/Bacterial_artificial_chromosome BACs] and [http://en.wikipedia.org/wiki/Yeast_artificial_chromosome YACs].
 +
 
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[http://www.sumanasinc.com/webcontent/animations/content/pcr.html A good animation on basic PCR], and an [http://www.youtube.com/watch?v=acKWdNj936o awesome animation on plasmid methods].
 +
 
 +
Decent explanation and some examples of [http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/R/RecombinantDNA.html Recombinant DNA techniques]. A very very well done [http://www.youtube.com/watch?v=x2jUMG2E-ic&feature=related silent film] on same.
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The wikipedia page on [http://en.wikipedia.org/wiki/Gel_electrophoresis gel electrophoresis], and specifically [http://en.wikipedia.org/wiki/Agarose_gel_electrophoresis agarose gel electrophoresis] for DNA, which you use to resolve and purify PCR products.
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Something [http://www.youtube.com/watch?v=u9dhO0iCLww trippy].
 +
 
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Something [http://www.youtube.com/watch?v=x5yPkxCLads not quite as trippy].
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==Yeast Culturing==
[http://www.protocol-online.org/prot/Model_Organisms/Yeast/Yeast_Culture/ Longterm storage and streaking protocols]
[http://www.protocol-online.org/prot/Model_Organisms/Yeast/Yeast_Culture/ Longterm storage and streaking protocols]
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[http://openwetware.org/wiki/Yeast Yeast Info on OWW] Contains General, Protocols, Materials, and References Info - [[User:Alzar|Alzar]]
[http://openwetware.org/wiki/Yeast Yeast Info on OWW] Contains General, Protocols, Materials, and References Info - [[User:Alzar|Alzar]]
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===Directed Evolution===
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==E. coli Culturing==
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===Malaria===
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http://cgsc.biology.yale.edu/
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===E. coli===
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[http://www.ciwemb.edu/labs/koshland/Protocols/BACTERIA/ecolicells.html Frozen Competent E.Coli Cells. Methods and protocol for freezing E.Coli Bacteria Competent Cells in aliquots for later use re-use.]
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check [[Team:Illinois/Research articles|e.coli research articles]]
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[http://minds.wisconsin.edu/handle/1793/7956 Opimization of recombitant E. coli protein expression in growth medium]
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http://cgsc.biology.yale.edu/
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[http://books.google.com/books?id=TH7OJGY7Br8C&pg=PA1&dq=protein+expression+e+coli&as_brr=0&sig=S18cODgXA7zmQFbsVcrOBwPVKRU#PPA92,M1 E. coli gene expression protocols (book available online on google books)]
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Frozen Competent E.Coli Cells. Methods and protocol for freezing E.Coli Bacteria Competent Cells in aliquots for later use re-use. http://www.ciwemb.edu/labs/koshland/Protocols/BACTERIA/ecolicells.ht
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[http://www.pepcore.embl.de/protein_expression/ecoli/index.html General indications and protocols for the expression in bacteria]
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Opimization of recombitant E. coli protein expression in growth medium
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[http://forums.biotechinstitute.org/showthread.php?t=60 Glycerol storage of E. coli bacterial stocks]
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http://minds.wisconsin.edu/handle/1793/7956
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[http://www.teknova.com/liquids/liquid-tbs.shtml Different liquid culture media for E. coli]
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E. coli gene expression protocols (book available online on google books)
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[http://www.teknova.com/dry_media/dry-lbagars.shtml Different dry culture media for bacterial growth]
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http://books.google.com/books?id=TH7OJGY7Br8C&pg=PA1&dq=protein+expression+e+coli&as_brr=0&sig=S18cODgXA7zmQFbsVcrOBwPVKRU#PPA92,M1
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General indications and protocols for the expression in bacteria
 
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http://www.pepcore.embl.de/protein_expression/ecoli/index.html
 
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Glycerol Storage of E.coli bacterial stocks
 
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http://forums.biotechinstitute.org/showthread.php?t=60
 
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===GPCRs===
 
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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="90%" align="center"
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{{bottom_template}}
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!align="center"|[[Team:Illinois|Home]]
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!align="center"|[[Team:Illinois/Team|The Team]]
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-
!align="center"|[[Team:Illinois/Project|The Project]]
+
-
!align="center"|[[Team:Illinois/Parts|Parts Submitted to the Registry]]
+
-
!align="center"|[[Team:Illinois/Modeling|Modeling]]
+
-
!align="center"|[[Team:Illinois/Research_articles|Research Articles]]
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!align="center"|[[Team:Illinois/Notebook|Notebook]]
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!align="center"|[[Team:Illinois/Current_Tasks|Current Tasks]]
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|}
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Latest revision as of 02:03, 8 October 2008

Home Team Notebook Research Articles Project Pictures Parts

General Molecular Biology

A great textbook called [http://www.mrw.interscience.wiley.com/emrw/9780471142720/cp/cpmb/toc Current Protocols in Molecular Biology] available entirely online contains protocols for pretty much any molecular biology technique- great resource.

Polymerase Chain Reaction, Plasmids, and Recombinant DNA

PCR is the foundation for everything we will do ever. Below are some links on the basic principles and practice of pcr and related important topics; as we begin our own protocols those specific steps will be recorded here.

I would start [http://www.youtube.com/watch?v=x5yPkxCLads here] for a nice intro to the historical context of PCR.

The [http://en.wikipedia.org/wiki/PCR wikipedia page on PCR] is good; I would skip the sections on 'variants' and history. Also their page on [http://en.wikipedia.org/wiki/Molecular_cloning cloning genes into cells] is good, and [http://en.wikipedia.org/wiki/Subcloning subcloning], all of which we'll probably end up using. And [http://en.wikipedia.org/wiki/Bacterial_artificial_chromosome BACs] and [http://en.wikipedia.org/wiki/Yeast_artificial_chromosome YACs].

[http://www.sumanasinc.com/webcontent/animations/content/pcr.html A good animation on basic PCR], and an [http://www.youtube.com/watch?v=acKWdNj936o awesome animation on plasmid methods].

Decent explanation and some examples of [http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/R/RecombinantDNA.html Recombinant DNA techniques]. A very very well done [http://www.youtube.com/watch?v=x2jUMG2E-ic&feature=related silent film] on same.

The wikipedia page on [http://en.wikipedia.org/wiki/Gel_electrophoresis gel electrophoresis], and specifically [http://en.wikipedia.org/wiki/Agarose_gel_electrophoresis agarose gel electrophoresis] for DNA, which you use to resolve and purify PCR products.

Something [http://www.youtube.com/watch?v=u9dhO0iCLww trippy].

Something [http://www.youtube.com/watch?v=x5yPkxCLads not quite as trippy].

Yeast Culturing

[http://www.protocol-online.org/prot/Model_Organisms/Yeast/Yeast_Culture/ Longterm storage and streaking protocols]

[http://www.mrw.interscience.wiley.com.proxy2.library.uiuc.edu/emrw/9780471142720/cp/cpmb/article/mb1302/current/pdf Growth and manipulation of yeast]

[http://openwetware.org/wiki/Yeast_culture_media Yeast culture media]

[http://www.protocol-online.org/prot/Model_Organisms/Yeast/Yeast_Transformation/ Yeast transformation protocols]

Methods in Yeast Genetics: A Cold Spring Harbor Laboratory Course Manual (1998 edition available in Biology library, newer editions currently checked out)

[http://openwetware.org/wiki/Yeast Yeast Info on OWW] Contains General, Protocols, Materials, and References Info - Alzar

E. coli Culturing

http://cgsc.biology.yale.edu/

[http://www.ciwemb.edu/labs/koshland/Protocols/BACTERIA/ecolicells.html Frozen Competent E.Coli Cells. Methods and protocol for freezing E.Coli Bacteria Competent Cells in aliquots for later use re-use.]

[http://minds.wisconsin.edu/handle/1793/7956 Opimization of recombitant E. coli protein expression in growth medium]

[http://books.google.com/books?id=TH7OJGY7Br8C&pg=PA1&dq=protein+expression+e+coli&as_brr=0&sig=S18cODgXA7zmQFbsVcrOBwPVKRU#PPA92,M1 E. coli gene expression protocols (book available online on google books)]

[http://www.pepcore.embl.de/protein_expression/ecoli/index.html General indications and protocols for the expression in bacteria]

[http://forums.biotechinstitute.org/showthread.php?t=60 Glycerol storage of E. coli bacterial stocks]

[http://www.teknova.com/liquids/liquid-tbs.shtml Different liquid culture media for E. coli]

[http://www.teknova.com/dry_media/dry-lbagars.shtml Different dry culture media for bacterial growth]



Home Team Project Notebook Research Articles Parts Protocols Pictures

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