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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]
Error fetching PMID 21217689:
  1. Error fetching PMID 21217689: [Gupta2011]
  • Computer-Aided Design (CAD) systems for synthetic biology - OPEN

Final Project Groups

Project Group
Caffeine Erik, Brian, Midhat, Peter
Spinach Mike, Jon, Logan, Jeremy
Snow Globe Adam, Yi, Razan, Ben, (Jeff)
Zombie Apocalypse David, Joe, Jared

For Monday, April 30, 2012

Final project presentations!

For Monday, April 23, 2012

As a group we will all read several papers each week for two weeks (April 16 and 23) 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).

Error fetching PMID 20453864:
Error fetching PMID 20154731:
Error fetching PMID 21035461:
Error fetching PMID 21847113:
  1. Error fetching PMID 20453864: [Gallivan]
    Atrazine seek and destroy

    Votes: Barrick, Meyer, Truong, Yi

  2. Error fetching PMID 20154731: [Chin]
    Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome

    Votes: Meyer, Truong, Yi, Barrick

  3. Error fetching PMID 21035461: [Voigt]
    Multichromatic Control of Gene Expression in Escherichia coli

    Votes: Meyer,

  4. Error fetching PMID 21847113: [Chang]
    Engineering microbes to sense and eradicate Pseudomonas aeruginosa, a human pathogen

    Votes: Meyer, Truong, Patel

All Medline abstracts: PubMed HubMed

For Monday, April 16, 2012

Smell (or maybe magnetic yeast? Huh?) - Joe Hanson

  • Guest topic (2 PM) - Dr. Hal Alper (Chemical Engineering)

Paper discussions.

For Monday, April 9, 2012

New Topics: Systems II

  • Artemisinic acid engineering- Peter Otoupal
  • MAGE lycopene production, CAGE "Amberless" E. coli - Logan Bachman
  • Synthetic Cooperation - 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

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:
    Error fetching PMID 16738572:
    1. Error fetching PMID 16738572: [Andrianantoandro2006]

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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