IGEM:IMPERIAL/2007/Projects/Experimental Design: Difference between revisions
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<div class="tabs-blue"> | <div class="tabs-blue"> | ||
<ul> | <ul> | ||
<li id="current">[[IGEM:IMPERIAL/2007/Experimental Design|Introduction]]</li> | <li id="current">[[IGEM:IMPERIAL/2007/Projects/Experimental Design|Introduction]]</li> | ||
<li>[[IGEM:IMPERIAL/2007/Experimental Design/Phase1|Phase 1]]</li> | <li>[[IGEM:IMPERIAL/2007/Experimental Design/Phase1|Phase 1]]</li> | ||
<li>[[IGEM:IMPERIAL/2007/Experimental Design/Phase2|Phase 2]]</li> | <li>[[IGEM:IMPERIAL/2007/Experimental Design/Phase2|Phase 2]]</li> | ||
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In addition any overlap between the experiments of the projects has been identified and considered when making the experimental design. | In addition any overlap between the experiments of the projects has been identified and considered when making the experimental design. | ||
==Status== | |||
*Several Problems have been identified, we have begun to address them. [[IGEM:IMPERIAL/2007/Projects/Experimental Design/Problems| Link here to problems.]] | |||
*We are currently trying to improve our methodology to get better results. [[IGEM:IMPERIAL/2007/Projects/Experimental Design/Improve Methodology| Link to improving our Methodology]] | |||
*<font color=red> Problems with dsRED, it has failed quality control</font> | |||
*Currently trying to purify LuxR and GFP. | |||
==Time table== | ==Time table== | ||
=== | ===General timetable=== | ||
{| style="background:#FAF5FF; border: 1px solid #aa99c5; color:Black" | {| style="background:#FAF5FF; border: 1px solid #aa99c5; color:Black" | ||
|- style="background:#aa99c5; color:Black" | |- style="background:#aa99c5; color:Black" | ||
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|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Monday''' | | style="background:#aa99c5" | '''Monday''' | ||
|| - || Refine the wiki || Planning the week | || - || Refine the wiki || Planning the week | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" |'''Tuesday''' | | style="background:#aa99c5" |'''Tuesday''' | ||
|| || Prepare GFP solution-calibration <br> Construct Calibration Curve <br>Refine the wiki || | || || Prepare GFP solution-calibration <br> Construct Calibration Curve <br>Refine the wiki || Testing to reduce evaporation | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Wednesday''' | | style="background:#aa99c5" | '''Wednesday''' | ||
|| Test Home made cell extract <br>Test varying levels of cell extract || <font color=red>PROBLEM-Wrong GFP!!!!</font> || | || Test Home made cell extract <br>Test varying levels of cell extract || <font color=red>PROBLEM-Wrong GFP!!!!</font> || 24hr experiment with pTet using paraffin oil | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Thursday''' | | style="background:#aa99c5" | '''Thursday''' | ||
|| || || | || || || | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Friday''' | | style="background:#aa99c5" | '''Friday''' | ||
||Prepare GFP solution-calibration <br> Construct Calibration Curve || || | ||Prepare GFP solution-calibration <br> Construct Calibration Curve || || | ||
|} | |} | ||
Line 52: | Line 56: | ||
| style="background:#aa99c5" |'''Tuesday''' | | style="background:#aa99c5" |'''Tuesday''' | ||
|| Phase 1 - test pT7 || || | || Phase 1 - test pT7 || || | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Wednesday''' | | style="background:#aa99c5" | '''Wednesday''' | ||
|| || || | || || || | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Thursday''' | | style="background:#aa99c5" | '''Thursday''' | ||
|| Test 20 and 37 °C,<br>Test GFP degradation at 20 and 37 °C || || | || Test 20 and 37 °C,<br>Test GFP degradation at 20 and 37 °C || || 24 Hour Exp Room Temp | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Friday''' | | style="background:#aa99c5" | '''Friday''' | ||
||Second day testing 20 and 37 °C || || | ||Second day testing 20 and 37 °C || ||Define the thresholds of temperature | ||
|} | |} | ||
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|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Monday''' | | style="background:#aa99c5" | '''Monday''' | ||
|| - || || | || - || || Purify LuxR | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" |'''Tuesday''' | | style="background:#aa99c5" |'''Tuesday''' | ||
|| test pLux in-vitro - 1nM AHL|| Refine AHL concentrations range 25°C<br> <font color=red> Purify LuxR if plasmid arrives|| | || test pLux in-vitro - 1nM AHL|| Refine AHL concentrations range 25°C<br> <font color=red> Purify LuxR if plasmid arrives|| Purification of LuxR - <font color=red> problems <font color=red> | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Wednesday''' | | style="background:#aa99c5" | '''Wednesday''' | ||
|| || <br> Purify LuxR if plasmid arrives || | || || <br> Purify LuxR if plasmid arrives || <font color=red> problems with LuxR pufification<font color=red> | ||
|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Thursday''' | | style="background:#aa99c5" | '''Thursday''' | ||
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|- style="background:#d4cae2" | |- style="background:#d4cae2" | ||
| style="background:#aa99c5" | '''Friday''' | | style="background:#aa99c5" | '''Friday''' | ||
|| Test construct with 5 AHL concentrations - 25 °C || Begin purification of LuxR || | || Test construct with 5 AHL concentrations - 25 °C || Begin purification of LuxR ||Test Purified LuxR with construct 2?? | ||
|} | |} | ||
<br> | <br> | ||
Latest revision as of 02:35, 21 September 2007
We have identified three phases of experiments for each of the project:
- Phase 1 - Intial testing of the promoters and test constructs in vitro
- Phase 2 - Testing/Validation of the test constructs
- Phase 3 - Testing/Validation of final constructs
In addition any overlap between the experiments of the projects has been identified and considered when making the experimental design.
Status
- Several Problems have been identified, we have begun to address them. Link here to problems.
- We are currently trying to improve our methodology to get better results. Link to improving our Methodology
- Problems with dsRED, it has failed quality control
- Currently trying to purify LuxR and GFP.
Time table
General timetable
Week 8 | Week 9 | Week 10 | |
Monday | - | Refine the wiki | Planning the week |
Tuesday | Prepare GFP solution-calibration Construct Calibration Curve Refine the wiki |
Testing to reduce evaporation | |
Wednesday | Test Home made cell extract Test varying levels of cell extract |
PROBLEM-Wrong GFP!!!! | 24hr experiment with pTet using paraffin oil |
Thursday | |||
Friday | Prepare GFP solution-calibration Construct Calibration Curve |
CBD
Week 8 | Week 9 | Week 10 | |
Monday | - | ||
Tuesday | Phase 1 - test pT7 | ||
Wednesday | |||
Thursday | Test 20 and 37 °C, Test GFP degradation at 20 and 37 °C |
24 Hour Exp Room Temp | |
Friday | Second day testing 20 and 37 °C | Define the thresholds of temperature |
ID
Week 8 | Week 9 | Week 10 | |
Monday | - | Purify LuxR | |
Tuesday | test pLux in-vitro - 1nM AHL | Refine AHL concentrations range 25°C Purify LuxR if plasmid arrives |
Purification of LuxR - problems |
Wednesday | Purify LuxR if plasmid arrives |
problems with LuxR pufification | |
Thursday | Clone in plasmid | ||
Friday | Test construct with 5 AHL concentrations - 25 °C | Begin purification of LuxR | Test Purified LuxR with construct 2?? |