Team:USTC/Modeling/Model-2

From 2009.igem.org

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== '''pConX<sub>2</sub>+LuxR+pLux/Tet+GFP''' ==
== '''pConX<sub>2</sub>+LuxR+pLux/Tet+GFP''' ==
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'''Parts:'''  K176026 K176126 K176128 K176130
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'''Parts:'''   
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<partinfo>K176026</partinfo> <partinfo>K176026 DeepComponents</partinfo>
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<partinfo>K176126</partinfo> <partinfo>K176128</partinfo> <partinfo>K176130</partinfo>
[[Image:model-2-2.jpg|800px]]
[[Image:model-2-2.jpg|800px]]
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We employed an ODE model. We defined the input to be AHL<sub>out</sub> the and the output to be the synthesis rate of mature GFP. In this system,we assumed the concentration of the LuxR was constant.
We employed an ODE model. We defined the input to be AHL<sub>out</sub> the and the output to be the synthesis rate of mature GFP. In this system,we assumed the concentration of the LuxR was constant.
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[[Image:s-m-2-1.jpg|550px]]
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[[Image:s-m-2-1.jpg|500px]]
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To simplify the model, the (Recation S2-4), (Recation S2-5) and (Recation S2-4) were considered to be able to get balance in a very short time.
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To simplify the model, the (Recation S2-4), (Recation S2-5) and (Recation S2-6) were considered to be able to get balance in a very short time.
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[[Image:sm2-1.jpg|900px]]
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[[Image:sm2-1-1-3.jpg|900px]]
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The values of 4.8E-3 for rmG, 4.8E-3 for a and 0.4 for pG were got from the F2620, and the value for d of 0.00368 based on the measurement of the OD.
 
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[[Image:s-m-2-2.jpg|900px]]
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From above equations, we can estimate the change of PoPS respond to the AHL<sub>in</sub>.
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[[Image:sm2-2.jpg|600px]]
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For this system, the value of parameter d, 0.00847,  could be estimated based on the measurement of the OD. For instance, when the concentration of AHL<sub>out</sub> was zero, the value of d was 0.00368 per minute. The values of 4.8E-3 per sec for rmG, 1.8E-3 per sec for a and 0.4 per sec for pG were got from the experiment conducted by Barry Canton and Anna Labno in 2004, click [http://partsregistry.org/Part:BBa_F2620:Experience/Endy/Data_analysis here] to the details.
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[[Image:SM2-3.jpg|450px|center]]
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With the help of [https://2009.igem.org/Team:USTC_Software USTC_Software], we succeeded to estimate the values of k<sub>3</sub>, r<sub>AHLin</sub>, C<sub>1</sub>, C<sub>2</sub>, C<sub>3</sub> and C<sub>4</sub>, using the data from our measurements. The simulation results as follows.
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k3=0.8; rAHL=0.001;
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C1=1.5*10^(-10); C2=1*10^(10); C3=8*10^(-7); C4=5.8*10^(11)
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[[Image:sm2-4.jpg|800px|center]]
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In above picture, the dots were the measuring poingts in our system and the curves were the corresponding simulations to a particular concentration of AHL<sub>out</sub>.
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[[Image:sm2-5.jpg|center]]
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In above picture, the dots were the measuring poingts in our system and the surface was the corresponding simulation.

Latest revision as of 03:23, 22 October 2009

USTC
Home Team Project Modeling Parts Standard & Protocol Software Tool Human Practice Notebook

Team:USTC/Modeling/Model-2

Contents


pConX2+LuxR+pLux/Tet+GFP

Parts:


Model-2-2.jpg

Simplified Model-2

We employed an ODE model. We defined the input to be AHLout the and the output to be the synthesis rate of mature GFP. In this system,we assumed the concentration of the LuxR was constant.

S-m-2-1.jpg


To simplify the model, the (Recation S2-4), (Recation S2-5) and (Recation S2-6) were considered to be able to get balance in a very short time.


Sm2-1-1-3.jpg


From above equations, we can estimate the change of PoPS respond to the AHLin.


Sm2-2.jpg


For this system, the value of parameter d, 0.00847, could be estimated based on the measurement of the OD. For instance, when the concentration of AHLout was zero, the value of d was 0.00368 per minute. The values of 4.8E-3 per sec for rmG, 1.8E-3 per sec for a and 0.4 per sec for pG were got from the experiment conducted by Barry Canton and Anna Labno in 2004, click here to the details.

SM2-3.jpg

With the help of USTC_Software, we succeeded to estimate the values of k3, rAHLin, C1, C2, C3 and C4, using the data from our measurements. The simulation results as follows.

k3=0.8; rAHL=0.001; C1=1.5*10^(-10); C2=1*10^(10); C3=8*10^(-7); C4=5.8*10^(11)

Sm2-4.jpg

In above picture, the dots were the measuring poingts in our system and the curves were the corresponding simulations to a particular concentration of AHLout.


Sm2-5.jpg

In above picture, the dots were the measuring poingts in our system and the surface was the corresponding simulation.

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