IGEM 2009 Project
Biology Based:
- Which reporters are we going to use?
- What naming system are we going to use for the suppressor tRNAs?
- How do you build the tRNA construct?
- How are we going to build the 5-mer BioBricks?
Using Stop Codons to Truncate Translation
Davidson ATG+5mer BioBrick Sequences
Frameshift Mutation Leader PCR primers
Align E. coli tRNA sequences
Compare 2 tRNA structures
Team Progress Table
| Student Name | 5mer Codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+XFP Status | 5mer+Drug resistance Status |
|---|---|---|---|---|---|---|
| Olivia Ho-Shing | CCAUC | GUGAUCCAA-9 | Pro4 | 2 clones being resequenced | 2 5mer+RFPs sequencing | 5 5mer+Tets sequencing |
| Olivia Ho-Shing | CCAUC | UUUGAUGGAG-10 | Pro5 | 1 clone being resequenced | 2 5mer+RFPs sequencing | 5 5mer+Tets sequencing |
| Romina Clemente | CUAGU | UUACUAGAC-9 | Leu4 | 1 clone 100% match, putting pBAD upstream | 9 5mer+RFPs sequencing | 5 5mer+Tets sequencing |
| Shamita Punjabi | CCACU | CUAGUGGAC-9 | Pro3 | 2 clones being re-sequenced | 6 5mer+RFPs sequencing | 5 5mer+Tets sequencing |
| Leland Taylor | CCCUC | CUGAGGGUC-9 | Pro6 | 1 clone 100% match, putting pBAD upstream | 7 5mer+RFPs sequencing | 7 5mer+Tets sequencing |
| Alyndria Thompson | CGGUC | UUGACCGAC-9 | Arg2 | 5 clones being sequenced | 4 5mer+RFPs sequencing | 6 5mer+Tets sequencing |
| Clif Davis | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 2 5mer+CAT Resistance Status |
| Student Name | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 5mer+Tet Resistance Status |
| Student Name | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 5mer+Tet Resistance Status |
| Student Name | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 5mer+Tet Resistance Status |
| Student Name | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 5mer+Tet Resistance Status |
| Student Name | 5mer codon | Anticodon Sequence | Codon Short Name | tRNA Status | 5mer+RFP Status | 5mer+Tet Resistance Status |
Math Based: (Davidson) We have posted a Mathematica notebook on the Wiggio. Basically we are at a point where we can choose the number of variables, SAT number(2-SAT, 3-SAT, etc), and the number of clauses to use at a time and produce a table of inputs as the rows and clauses as the columns, with a 1 if the input satisfies the clause and a 0 if the input fails to satisfy the clause. In addition, we can produce a "Super Table," which lists all the SAT problems given the number of clauses in conjunctive normal form and displays how many of the clauses in a given problem each input satisfies. Feel free to view the posted Mathematica notebook; there are some instructions within the notebook itself. When you open it, there will be a window which asks about dynamic content; be sure to click "Enable Dynamic."
