From 2012.igem.org
Appendix
To complete this report we list all products and software used over the course of our project.
Constructs
| pRS | p1 | p2 | p3 |
|---|
| 313 | Padh1 | mPR danio rerio | Tadh1 |
| 313 | Padh1 | mPR Xenopus laevis | <tdTadh1</td>
<tr><td>315</td><td>Pfet3</td><td>rox1</th><th>Tadh1</td></tr>
<tr><td>315</td><td>Pfet3</td><td>mig1</th><th>Tadh1</td></tr>
<tr><td>316</td><td>Panb1</td><td>lacZ</th><th>Tadh1</td></tr>
<tr><td>316</td><td>Panb1</td><td>luciferase</th><th>Tadh1</td></tr>
<tr><td>316</td><td>Psuc2</td><td>lacZ</th><th>Tadh1</td></tr>
<tr><td>316</td><td>Psuc2</td><td>luciferase</th><th>Tadh1</td></tr>
</table>
Protocols
Kits
- Genaxxon Plasmid DNA Purification Mini Prep
- Genaxxon Gel Extraction Mini Prep
- Genaxxon PCR DNA Purification Mini Prep
- Qiagen Plasmid Midi
Chemicals
We needed the following chemicals:
- Ampicillin
beta-lactam antibiotic
- Agarose
Polysaccharide, major component of Agar
- Dimethylsulfoxid (DMSO)
organic solvent
- Acetic Acid
- Ethylenediaminetetraacetic acid (EDTA)
- Ethanol
- TRIS
buffer solution for enzymes
- Nucleoside triphosphate
- Trypton
- Isopropanol
- Isopropyl-β-D-thiogalactopyranosid (IPTG)
- LB-medium
used for growth of E.coli
- Agar-Agar
Software
The following list of software was used in the team:
- [http://ugene.unipro.ru/ Unipro UGENE]
UGENE is a free open-source cross-platform bioinformatics software. We used it to construct and annotate all needed sequences, search for restriction sites and visualization.
- [http://de-de.invitrogen.com/site/de/de/home/Products-and-Services/Applications/Cloning/vector-nti-software.html Vector NTI] (commercial)
All our primers were designed using Vector NTI which is also used by our advisors.
- [http://blast.ncbi.nlm.nih.gov/Blast.cgi BLAST]
BLAST was our main sequence search tool. It was quite useful for controlling sequence results.
- [http://biologylabs.utah.edu/jorgensen/wayned/ape/ ApE]
- [http://drive.google.com Google Drive]
Google Drive was used for our documentation and all of our collaborative work (papers, poster, images).
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