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Team:Freiburg Bioware/Modeling/Virus Infection
From 2010.igem.org
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<h1>Model for Virus Infection</h1> | <h1>Model for Virus Infection</h1> | ||
| - | As in the previous model for the virus production we established a ODE model based on the law of mass action. The following paragraph explains the reaction scheme and our model assumptions. In the subsequent paragraphs the system of differential equations is specified and the implementation in | + | As in the previous model for the virus production we established a ODE model based on the law of mass action. The following paragraph explains the reaction scheme and our model assumptions. In the subsequent paragraphs the system of differential equations is specified and the implementation in MathWorks® MATLAB is discussed.<br> |
The last section deals with our modeling results. | The last section deals with our modeling results. | ||
<br><br> | <br><br> | ||
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<br><br> | <br><br> | ||
| - | <h2>Simulation</h2> | + | <h2>Methods and Simulation</h2> |
| + | The ODE model was implemented in MathWorks® MATLAB R2010b. Integration of the differential equations was achieved using the stiff integrator <i>ode15s</i> with automatic integration step size management.<br> | ||
| + | To calibrate the dynamics of the mathematical model to those of biological system we used time lapse data of fluorescence experiments as well as published values for the rate constants. | ||
| + | <br><br> | ||
| + | The parameters used are given in the table below. Also you can download the MATLAB source code. | ||
| + | <br> | ||
| + | <img width="405" height="337" src="https://static.igem.org/mediawiki/2010/4/49/Freiburg10_RateConstants01.png" alt="" /> | ||
| + | <br> | ||
| + | |||
| + | <a href="https://static.igem.org/mediawiki/2010/8/87/Freiburg10_VirusInfectionCode.m">get the .m-File (MATLAB source code)</a><br> | ||
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<center> | <center> | ||
| - | <img width="655" height="314" src="https://static.igem.org/mediawiki/2010/8/85/ | + | <img width="655" height="314" src="https://static.igem.org/mediawiki/2010/8/85/Freiburg10_VirusInfection06.png" alt="Reaction scheme for the virus production" /> |
</center> | </center> | ||
<br><br> | <br><br> | ||
<center> | <center> | ||
| - | <img width="800" height="285" src="https://static.igem.org/mediawiki/2010/8/84/ | + | <img width="800" height="285" src="https://static.igem.org/mediawiki/2010/8/84/Freiburg10_VirusInfection07.png" alt="Reaction scheme for the virus production" /> |
</center> | </center> | ||
Revision as of 08:35, 23 October 2010
Model for Virus Infection
As in the previous model for the virus production we established a ODE model based on the law of mass action. The following paragraph explains the reaction scheme and our model assumptions. In the subsequent paragraphs the system of differential equations is specified and the implementation in MathWorks® MATLAB is discussed.The last section deals with our modeling results.
Reaction Scheme
Reduced Reaction Scheme
Differential Equations
Methods and Simulation
The ODE model was implemented in MathWorks® MATLAB R2010b. Integration of the differential equations was achieved using the stiff integrator ode15s with automatic integration step size management.To calibrate the dynamics of the mathematical model to those of biological system we used time lapse data of fluorescence experiments as well as published values for the rate constants.
The parameters used are given in the table below. Also you can download the MATLAB source code.
get the .m-File (MATLAB source code)
Results and Discussion
