Team:Peking/Modeling/Luminesensor/Simulation

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   <td>Expression</td>
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   <td style="text-align:center;">Expression</td>
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   <td>Description</td>
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   <td style="text-align:center;">Description</td>
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   <td>Remark</td>
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   <td style="text-align:center;">Remark</td>
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   <td>r<sub>b</sub> = 1 - [D<sub>L</sub>]/[D<sub>T</sub>]</td>
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   <td style="text-align:center;">r<sub>b</sub> = 1 - [D<sub>L</sub>]/[D<sub>T</sub>]</td>
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   <td>This indicates the repressing degree.</td>
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   <td style="font-size:14px;width:220px;">This indicates the repressing degree.</td>
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   <td style="font-size:10px;width:200px;">D<sub>T</sub> indicates the total specific binding sites, while the D<sub>L</sub> indicates the free ones among D<sub>T</sub>.</td>
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   <td style="font-size:12px;width:200px;line-height:12px;">D<sub>T</sub> indicates the total specific binding sites, while the D<sub>L</sub> indicates the free ones among D<sub>T</sub>.</td>
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   <td>r<sub>d</sub> = 2[L<sub>A</sub><sup>2</sup>X]/[L<sub>T</sub>]</td>
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   <td style="text-align:center;">r<sub>d</sub> = 2[L<sub>A</sub><sup>2</sup>X]/[L<sub>T</sub>]</td>
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   <td>This indicates the dimerizing degree.</td>
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   <td style="font-size:14px;width:220px;">This indicates the dimerizing degree.</td>
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   <td style="font-size:10px;width:200px;">L<sub>T</sub> indicates the total <i>Luminesensor</i> molecules, and L<sub>A</sub><sup>2</sup>X indicates all dimered <i>Luminesensor</i> molecules, <i>i.e.</i> L<sub>A</sub><sup>2</sup> + L<sub>A</sub><sup>2</sup>D<sub>L</sub>.</td>
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   <td style="font-size:12px;width:200px;line-height:12px;">L<sub>T</sub> indicates the total <i>Luminesensor</i> molecules, and L<sub>A</sub><sup>2</sup>X indicates all dimered <i>Luminesensor</i> molecules, <i>i.e.</i> L<sub>A</sub><sup>2</sup> + L<sub>A</sub><sup>2</sup>D<sub>L</sub>.</td>
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   <td>r<sub>a</sub> = ([L<sub>A</sub>X] + 2[L<sub>A</sub><sup>2</sup>X])/[L<sub>T</sub>]</td>
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   <td style="text-align:center;">r<sub>a</sub> = ([L<sub>A</sub>X] + 2[L<sub>A</sub><sup>2</sup>X])/[L<sub>T</sub>]</td>
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   <td>This indicates the activating degree.</td>
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   <td style="font-size:14px;width:220px;">This indicates the activating degree.</td>
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   <td style="font-size:10px;width:200px;">L<sub>A</sub>X indicates all monomer <i>Luminesensor</i> molecules, <i>i.e.</i> L<sub>A</sub> + L<sub>A</sub>D<sub>L</sub>.</td>
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   <td style="font-size:12px;width:200px;line-height:12px;">L<sub>A</sub>X indicates all monomer <i>Luminesensor</i> molecules, <i>i.e.</i> L<sub>A</sub> + L<sub>A</sub>D<sub>L</sub>.</td>
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Revision as of 01:44, 23 September 2012

ODE model

According to the previous network and ODE model, we listed all the differential equations (detail here) and simulated this system with MATLAB. We specifically watched three expressions to understand the mechanism for Luminesensor.

Expression Description Remark
rb = 1 - [DL]/[DT] This indicates the repressing degree. DT indicates the total specific binding sites, while the DL indicates the free ones among DT.
rd = 2[LA2X]/[LT] This indicates the dimerizing degree. LT indicates the total Luminesensor molecules, and LA2X indicates all dimered Luminesensor molecules, i.e. LA2 + LA2DL.
ra = ([LAX] + 2[LA2X])/[LT] This indicates the activating degree. LAX indicates all monomer Luminesensor molecules, i.e. LA + LADL.

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