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</div> | </div> | ||
+ | |||
+ | <div class="item"> | ||
+ | |||
+ | <table> | ||
+ | <tr> | ||
+ | <th>Rate constant</th> | ||
+ | <th>Description</th> | ||
+ | |||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>k1</td> | ||
+ | <td>mRNA degradation rate</td> | ||
+ | |||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>k2</td> | ||
+ | <td>Translation rate</td> | ||
+ | |||
+ | </tr> | ||
+ | |||
+ | <tr> | ||
+ | <td>k3</td> | ||
+ | <td>Protein degradation rate</td> | ||
+ | |||
+ | </tr> | ||
+ | </table> | ||
+ | |||
+ | </div> | ||
+ | |||
</div> | </div> | ||
Revision as of 15:25, 24 October 2017
Modeling
Modeling in synthetic biology and iGEM Freiburg 2017
In synthetic biology, modeling can be applied to a wide range of topics, for example modeling of genetic circuits to predict their outcome and to support, if enough data is available, further development such as optimizing genetic circuits for a desired outcome.
In this subfield of mathematical and computational biology, ordinary differential equations (ODEs) are used to describe the transcriptional and translational process (Chen et al., 1999). ODEs consist of a set of parameters and a system of functions and their derivatives. How they can be set up in their simplest form is shown below.
(1)
(2)
The variables are functions of time t where describes the mRNA concentration, the transcription function and the protein concentration. Rate constants are enlisted in the following table.
Rate constant | Description |
---|---|
k1 | mRNA degradation rate |
k2 | Translation rate |
k3 | Protein degradation rate |