Revision as of 16:59, 25 September 2012

Quantitative model interactive simulations

Based on experimental data, we constructed what we refer to as a quantitative model. Please see Quantitative and stability model for details.

Mutual repressor switch simulation
The positive feedback loop switch simulation

Mutual repressor switch

INPUT VECTORS DOSAGE

Construct	Dosage
[A]_pCMV_TAL-B:KRAB_BFP	ng
[B]_pCMV_TAL-A:KRAB_mCitrine	ng
pCMV_[PIR]_TAL-B:KRAB	ng
pCMV_[ETR]_TAL-B:KRAB	ng
pCMV_PIP:KRAB	ng
pCMV_E:KRAB	ng

(Enter dosages for corresponding plasmids.)

TRANSCRIPTION FACTORS
Equal transcription factors
(Transcription factors will alter transcription with equal rates)

INDUCERS


Pristinamycin
Input times [min]
Durations [min]


Erithromycin
Input times [min]
Durations [min]

(For each input time of an inducer, enter its corresponding duration, i.e. after how many minutes the inducer will be removed. )

SIMULATION

Time: min
(Simulation running time)

(The results will be shown in a new browser window/tab after few seconds. Have fun.)

Positive feedback loop switch

INPUT VECTORS DOSAGE

Construct	Dosage
[A]_pCMV_TAL-B:KRAB_TAL-A:VP16_BFP	ng
[B]_pCMV_TAL-A:KRAB_TAL-B:VP16_mCitrine	ng
pCMV_[PIR]_TAL-B:KRAB_TAL-A:VP16	ng
pCMV_[ETR]_TAL-A:KRAB_TAL-B:VP16	ng
pCMV_PIP:KRAB_E:KRAB	ng

(Enter dosages for corresponding plasmids.)

TRANSCRIPTION FACTORS
Equal transcription factors
(Transcription factors will alter transcription with equal rates)

INDUCERS


Pristinamycin
Input times [min]
Durations [min]


Erithromycin
Input times [min]
Durations [min]

(For each input time of an inducer, enter its corresponding duration, i.e. after how many minutes the inducer will be removed. )

SIMULATION
Time: min
(Simulation running time)

(The results will be shown in a new browser window/tab after few seconds. Have fun.)

@@ Line 156: / Line 156: @@
 /* Tables */
 /* IE 6: http://webdesign.about.com/od/tables/qt/tiptablecenter.htm */
-table.normal { border-collapse: collapse; margin: auto; width:80%; margin-bottom:15px; }
+table.normal { border-collapse: collapse;  width:50%; margin-bottom:15px; }
 td.normal, th.normal { padding-left: 1.4em; padding-right: 1.4em; padding-top: 0.4em; padding-bottom: 0.4em; border: 1px #d8d8d8 solid; }
 thead.normal{ background: #0C5DA5; color:#ffffff; border: 1px #d8d8d8 solid; }
@@ Line 427: / Line 427: @@
        <b>INPUT VECTORS DOSAGE</b> <br/>
-       <table>
-         <th>
+       <table class="normal" width="40%">
-         <tr><td>Construct</td><td>Dosage</td></tr>
+         <thead class="normal">
-         </th>
+         <tr class="normal"><th class="normal">Construct</th><th class="normal">Dosage</th></tr>
-       <tr><td><strong>[A]_pCMV_TAL-B:KRAB_BFP</strong> </td><td> <input type="text" name="plasmid1" size="5" value="190" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+         </thead>
-       <tr><td><strong>[B]_pCMV_TAL-A:KRAB_mCitrine</strong> </td><td> <input type="text" name="plasmid2" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+      <tbody class="normal">
-       <tr><td><strong>pCMV_[PIR]_TAL-B:KRAB</strong> </td><td> <input type="text" name="plasmid3" size="5" value="190" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>[A]_pCMV_TAL-B:KRAB_BFP</strong> </td><td class="normal"> <input type="text" name="plasmid1" size="5" value="190" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
-       <tr><td><strong>pCMV_[ETR]_TAL-B:KRAB</strong> </td><td> <input type="text" name="plasmid4" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>[B]_pCMV_TAL-A:KRAB_mCitrine</strong> </td><td class="normal"> <input type="text" name="plasmid2" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
-       <tr><td><strong>pCMV_PIP:KRAB</strong> </td><td> <input type="text" name="plasmid5" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>pCMV_[PIR]_TAL-B:KRAB</strong> </td><td class="normal"> <input type="text" name="plasmid3" size="5" value="190" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
-       <tr><td><strong>pCMV_E:KRAB </strong> </td><td> <input type="text" name="plasmid6" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>pCMV_[ETR]_TAL-B:KRAB</strong> </td><td class="normal"> <input type="text" name="plasmid4" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>pCMV_PIP:KRAB</strong> </td><td class="normal"> <input type="text" name="plasmid5" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+       <tr class="normal"><td class="normal"><strong>pCMV_E:KRAB </strong> </td><td class="normal"> <input type="text" name="plasmid6" size="5" value="180" onKeyPress="return numbersonly(this, event)" maxlength="4"/> ng</td></tr>
+      </tbody>
        </table>
        <font color="red">(Enter dosages for corresponding plasmids.)</font><br /><br />
@@ Line 517: / Line 520: @@
        <b>INPUT VECTORS DOSAGE</b>
-       <table>
+       <table class="normal">
-         <th>
+         <thead class="normal">
-         <tr><td>Construct</td><td>Dosage</td></tr>
+         <tr class="normal"><td class="normal">Construct</td><td class="normal">Dosage</td></tr>
-         </th>
+         </thead>
-         <tr><td><strong>[A]_pCMV_TAL-B:KRAB_TAL-A:VP16_BFP </strong></td><td><input type="text" name="plasmid1" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+        <tbody>
-         <tr><td><strong>[B]_pCMV_TAL-A:KRAB_TAL-B:VP16_mCitrine</strong></td><td><input type="text" name="plasmid2" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+         <tr class="normal"><td class="normal"><strong>[A]_pCMV_TAL-B:KRAB_TAL-A:VP16_BFP </strong></td><td class="normal"><input type="text" name="plasmid1" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
-         <tr><td><strong>pCMV_[PIR]_TAL-B:KRAB_TAL-A:VP16</strong></td><td><input type="text" name="plasmid3" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+         <tr class="normal"><td class="normal"><strong>[B]_pCMV_TAL-A:KRAB_TAL-B:VP16_mCitrine</strong></td><td class="normal"><input type="text" name="plasmid2" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
-         <tr><td><strong>pCMV_[ETR]_TAL-A:KRAB_TAL-B:VP16</strong></td><td><input type="text" name="plasmid4" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+         <tr class="normal"><td class="normal"><strong>pCMV_[PIR]_TAL-B:KRAB_TAL-A:VP16</strong></td><td class="normal"><input type="text" name="plasmid3" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
-         <tr><td><strong>pCMV_PIP:KRAB_E:KRAB</strong></td><td><input type="text" name="plasmid5" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+         <tr class="normal"><td class="normal"><strong>pCMV_[ETR]_TAL-A:KRAB_TAL-B:VP16</strong></td><td class="normal"><input type="text" name="plasmid4" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
-      </table>
+         <tr class="normal"><td class="normal"><strong>pCMV_PIP:KRAB_E:KRAB</strong></td><td class="normal"><input type="text" name="plasmid5" size="5" value="200" onKeyPress="return numbersonly(this, event)"/> ng</td></tr>
+        </tbody>
+        </table>
         <font color="red">(Enter dosages for corresponding plasmids.)</font><br /><br />

Team:Slovenia/ModelingInteractiveSimulations

From 2012.igem.org

Revision as of 16:59, 25 September 2012

Quantitative model interactive simulations

Mutual repressor switch

Positive feedback loop switch