Difference between revisions of "IGEM 2010 Project"

Revision as of 14:08, 15 June 2010

• Davidson Lab Protocols
  
• MWSU Lab Protocols
  
• GCAT-alog Freezer Stocks
  

We need to start capturing what we are doing, and why.

Please use this page as a starting place.

We need an overall description of our project at the overview level as well as the subsections and phases of implementation.

Math Sub-Projects

Counting Permutations

Improving Oligo Assembler We adapted the lancelator (http://gcat.davidson.edu/IGEM06/oligo.html), a program created by Lance Harden as a part of the 2006 iGem team, so that it would execute faster and can handle longer sequences. The old program could only handle sequences of 300 bp or shorter. Also, the more oligos the program broke the sequence into, the longer it took to run, and for 8 or more the run time was simply unreasonable. However, for the sequences it could handle it always finds the optimal oligos to use. Our program allows the user to enter a sequence of any length, and the length does not significantly effect runtime. In addition, we added extra features such as checking for and removing BioBrick restriction sites and adding BioBrick primers. While our program does not always find the optimal oligos, it still does very well which is an acceptable compromise because the runtime is improved so dramatically.

http://gcat.davidson.edu/iGem10/index.html

Biology Sub-Projects

Codon Optimization

Tet-trations

Making and Testing lox_ Sites

Testing Cre Activity