Revision as of 13:11, 31 March 2014

This is a list of the key papers for the semester.

This will be updated throughout the semester to record the papers discussed and to provide a quick reference source for anyone looking back on the class.

For Week III, February 3rd 2014

• iGEM registry/parts:
  1. T. Knight, “Idempotent Vector Design for Standard Assembly of Biobricks” (MIT, Cambridge, MA, 2003). [Knight2003]

• BioBricks:
  Error fetching PMID 18612302:
  2. Error fetching PMID 18612302: [Endy2008]

• CAD systems:
  Error fetching PMID 19874625:
  3. Error fetching PMID 19874625: [Sauro2009]

For Week IV, February 10th 2014

• Gibson assembly:
  Error fetching PMID 19363495:
  4. Error fetching PMID 19363495: [Smith2009]

• Genome synthesis:
  Error fetching PMID 20488990:
  5. Error fetching PMID 20488990: [Venter2010]

For Week V, February 17th 2014

• GFP and Ancestral Sequence Reconstruction: [combined for time and similarity]
  Error fetching PMID 19793832:
  6. Error fetching PMID 19793832: [Matz2010]

For Week VI, February 24th 2014

• Link to Tinker Cell

For Week VII, March 3rd 2014

• Directed Protein Evolution:
  Error fetching PMID 21478873:
  7. Error fetching PMID 21478873: [Liu2011]

• Biocontainment and Selections:
  Error fetching PMID 23662731:
  8. Error fetching PMID 23662731: [Guo2013]

• Reading for riboswitches (read before class on March 3rd)

For Week VIII, March 17th 2014

• Non-canonical Nucleotides:
  Error fetching PMID 17074747:
  9. Error fetching PMID 17074747: [Benner2006]

• Stochastic Gene Expression:
  Error fetching PMID 12183631:
  10. Error fetching PMID 12183631: [Swain2002]

For Week IX, March 24th 2014

• Motility and Taxis
  Error fetching PMID 16330045:
  11. Error fetching PMID 16330045: [Voigt2006]

• Optogenetics - Review article
  Error fetching PMID 21255749:
  12. Error fetching PMID 21255749: [LaLumiere2011]

• Quorum Sensing
  Error fetching PMID 20534565:
  13. Error fetching PMID 20534565: [March2010]

For Week X, March 31st 2014

• Cell Counting and Memory
  Error fetching PMID 19478183:
  14. Error fetching PMID 19478183: [Collins2009]

• Oscillations
  Error fetching PMID 18971928:
  15. Error fetching PMID 18971928: [Hasty2008]

For Week XI, March April 7th 2014

• MAGE
  Error fetching PMID 21764749:
  16. Error fetching PMID 21764749: [Church2011]

• CRISPR
  Error fetching PMID 23287722:
  17. Error fetching PMID 23287722: [Church2013]

• GMO article from the NY Times. Read the entirety of this article. We will have a discussion relating to this and other GMO topics in class [1]

• Amber-less E. coli [Led by Mike Hammerling. Look over the paper, but you do not need to understand everything
  Error fetching PMID 24136966:
  18. Error fetching PMID 24136966: [Isaacs2013]