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Yet to sign up for second presentation:

  1. 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]
  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. . pmid:21217689. PubMed HubMed [Gupta2011]
  • 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).

  1. Sinha J, Reyes SJ, and Gallivan JP. . pmid:20453864. PubMed HubMed [Gallivan]
    Atrazine seek and destroy

    Votes: Barrick, Meyer, Truong, Yi

  2. Neumann H, Wang K, Davis L, Garcia-Alai M, and Chin JW. . pmid:20154731. PubMed HubMed [Chin]
    Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome

    Votes: Meyer, Truong, Yi

  3. Tabor JJ, Levskaya A, and Voigt CA. . pmid:21035461. PubMed HubMed [Voigt]
    Multichromatic Control of Gene Expression in Escherichia coli

    Votes: Meyer,

  4. Saeidi N, Wong CK, Lo TM, Nguyen HX, Ling H, Leong SS, Poh CL, and Chang MW. . pmid:21847113. PubMed HubMed [Chang]
    Engineering microbes to sense and eradicate Pseudomonas aeruginosa, a human pathogen

    Votes: Meyer, Truong

All Medline abstracts: PubMed HubMed

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
  • Riboswitches (synthetic and natural) - 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

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
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