IGEM:Harvard/2006/DNA nanostructures/Notebook: Difference between revisions
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==Brainstorming and future projects== | ==Brainstorming and future projects== |
Revision as of 09:28, 18 July 2006
Daily notebook
<calendar> name=IGEM:Harvard/2006/DNA_nanostructures/Notebook date=2006/07/01 view=threemonths format=%name/%year-%month-%day weekstart=7 </calendar>
Brainstorming and future projects
Thrombin-aptamer experiments
Questions / procedures
- what percent gel? 10% to 20% polyacrylamide gels, no SDS (but would make for a good control)
- what incubation conditions?
- how much protein and DNA? protein at 1 μM, DNA at 2 μM
- Coomassie stain
Experiments
number | thrombin | aptamer | nanotube | DNA-stained prediction | protein-stained prediction |
0 | - | - | - | no bands | no bands |
1 | - | - | + | slow band (nanotube) | no bands |
2 | - | + | - | fast band (aptamer) | no bands |
3 | - | + | + | slow band (aptamer-nanotube), traces of fast band (aptamer) | no bands |
4 | + | - | - | no bands | fast band (thrombin) |
5 | + | - | + | slow band (nanotube) | fast band (thrombin) |
6 | + | + | - | medium band (aptamer-thrombin), fast band (aptamer) | medium band (aptamer-thrombin), traces of fast band (thrombin) |
7 | + | + | + | very slow band (thrombin-aptamer-nanotube), slow band (aptamer-nantotube), traces of fast band (aptamer) | very slow band (thrombin-aptamer-nanotube), medium band (aptamer-thrombin), traces of fast band (thrombin) |
Buffers
- Macaya's and Bock's selection buffer: 20 mM Tris-acetate, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM CaCl2, 1 mM MgCl2
- Liu's incubation buffer: 40 mM Tris, 20 mM CH3COOH, 2mM EDTA, 12.5 mM (CH3COO)2Mg, pH 8.0
- Liu's PAGE buffer: 1x TAE/Mg2+