CH391L/S12/Assignments: Difference between revisions
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Revision as of 13:29, 19 March 2012
Yet to sign up for second presentation:
- Joe Hanson
Other topic ideas
- Riboswitches (synthetic and natural) - OPEN
- Directed evolution (plasmid-based in vivo evolution of thermostability, altered substrate specificity, etc) and/or phage display. - OPEN
- Possible reference [1]
- Gupta RD, Goldsmith M, Ashani Y, Simo Y, Mullokandov G, Bar H, Ben-David M, Leader H, Margalit R, Silman I, Sussman JL, and Tawfik DS. Directed evolution of hydrolases for prevention of G-type nerve agent intoxication. Nat Chem Biol. 2011 Feb;7(2):120-5. DOI:10.1038/nchembio.510 |
- Computer-Aided Design (CAD) systems for synthetic biology - OPEN
For Monday, April 30, 2012
For Monday, April 23, 2012
As a group we will read three papers on each of these days and discuss them in detail.
Nominated Papers
(Vote by placing your name in the comments after a paper. You can vote for as many as you would like).
- Sinha J, Reyes SJ, and Gallivan JP. Reprogramming bacteria to seek and destroy an herbicide. Nat Chem Biol. 2010 Jun;6(6):464-70. DOI:10.1038/nchembio.369 |
Atrazine seek and destroy
Votes: Barrick, Meyer, Truong
- Neumann H, Wang K, Davis L, Garcia-Alai M, and Chin JW. Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome. Nature. 2010 Mar 18;464(7287):441-4. DOI:10.1038/nature08817 |
Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome
Votes: Meyer, Truong, Yi
- Tabor JJ, Levskaya A, and Voigt CA. Multichromatic control of gene expression in Escherichia coli. J Mol Biol. 2011 Jan 14;405(2):315-24. DOI:10.1016/j.jmb.2010.10.038 |
Multichromatic Control of Gene Expression in Escherichia coli
Votes: Meyer,
- Saeidi N, Wong CK, Lo TM, Nguyen HX, Ling H, Leong SS, Poh CL, and Chang MW. Engineering microbes to sense and eradicate Pseudomonas aeruginosa, a human pathogen. Mol Syst Biol. 2011 Aug 16;7:521. DOI:10.1038/msb.2011.55 |
Engineering microbes to sense and eradicate Pseudomonas aeruginosa, a human pathogen
Votes: Meyer, Truong
For Monday, April 16, 2012
Smell (or Riboswitches if I get convinced) - Joe Hanson
- Guest topic (2 PM) - Dr. Hal Alper (Chemical Engineering)
For Monday, April 9, 2012
New Topics: Systems II
- Artemisinic acid engineering- Peter Otoupal
- MAGE lycopene production - Logan Bachman
- Topic of choice - Jeremy McLain
For Monday, April 2, 2012
- Comment on or add to old topics.
New Topics: Systems I
- Repressilator, counter, toggle swtich - Razan Alnahhas
- Edge detection E. coli - Jared Ellefson
- Refactored T7 and yeast - Jon Laurent
For Monday, March 26, 2012
- Comment on or add to old topics.
New Topics: Complex Parts
- Quorum sensing - Brian Renda
- Locomotion - Erik Quandt
- Unnatural amino acids - Michael Hammerling
For Monday, March 19, 2012
- Comment on or add to old topics.
New Topics: Reporter Genes
- Guest topic (2 PM) - Dr. Andy Ellington (Chemistry and Biochemistry)
- Fluorescent/luminescent proteins (GFP, lux, variants) - Midhat Patel
- Pigments - Yi Kou
- Smell - OPEN
For Monday, March 5, 2012
- Comment on or add to old topics.
New Topics: Gene Regulation
- Origins of Replication - Adam Meyer
- Protein regulators of transcription (Lac, Ara, etc) - Ben Slater
- Light sensing. Two-component systems - David Truong
For Monday, February 27, 2012
- Comment on or add to old topics.
New Topics: Basic Gene Construction
- Transcription: initiation and termination - Logan Bachman
- Spinach RNA - Jon Laurent
- Translation. Ribosome binding sites and codon optimization - Jeremy McLain
For Monday, February 20, 2012
- Comment on or add to old topics.
New Topics: Chassis and Backbones
- Selectable genetic markers (Ab resistance, etc.) - Peter Otoupal
- Toxin/anti-toxins, plasmid addiction systems - Brian Renda
- Counter-selectable genetic markers - Erik Quandt
For Monday, February 13, 2012
- Comment on or add to old topics.
New Topics: Optimizing Parts and their Interactions
- Gene/genome synthesis/Gibson assembly - Joe Hanson
- Host organisms (general properties of common ones, new ones that are being developed) - Michael Hammerling
- Metabolic engineering - Razan Alnahhas
For Monday, February 6, 2012
- Add a link to your user page to the CH391L Users Page.
- Add something to your user page.
- Comment on or add to old topics.
New Topics: Assembling Biological Parts
- Restriction enzyme cloning & BioBricks/BglBricks assembly - Ben Slater
- Advanced PCR techniques - Yi Kou
For Monday, January 30, 2012
- Register to use the OpenWetWare Wiki.
- Learn how to edit pages.
- Play around in the WIki sandbox.
- Leave at least one comment on the Talk page or make at least one addition to Introduction to Synthetic Biology
- Read the review article:
New Topics: Finding Biological Parts
- iGEM registry - Midhat Patel
- bioprospecting / metagenomics - David Truong
- directed evolution / in vitro selection - Adam Meyer
- ancestral protein construction - Jared Ellefson