Team:TUDelft/Modeling

From 2009.igem.org

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='''Delay Device'''=
='''Delay Device'''=
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==Negative Feedforward system==
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[[Image:Negative Feedforward.jpg]]<br>
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[[Image:Negative Feedforward.jpg]]
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Figure 1: Negative Feedforward model<br>
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[[Image:Riboregulator_delay.jpg]]<br>
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Figure 2: Riboregulator model<br>
==Mathematical Modeling==
==Mathematical Modeling==
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The model shown above can be expressed with the following set of ODEs (ordinary differential equations) (thanks to the help of previous iGEM projects by [https://2008.igem.org/Team:Bologna/Modeling Bologna '08 team] and [https://2008.igem.org/Team:UNIPV-Pavia/Modeling UNIPV-Pavia '08 team]:<br>
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The Negative Feedforward model shown above can be expressed with the following set of ODEs (ordinary differential equations):<br>
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[[Image:negative_feedforward_ODEs.jpg]]<br>
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[[Image:negative_feedforward_ODEs_2.jpg]]<br>
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The Riboregulator model shown above can be expressed with the following set of ODEs:<br>
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[[Image:riboregulator_ODEs.jpg]]<br>
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We would like to give credit to the [https://2008.igem.org/Team:Bologna/Modeling Bologna '08 team] and [https://2008.igem.org/Team:UNIPV-Pavia/Modeling UNIPV-Pavia '08 team], who's project was useful in determining our own equations:<br>
The symbols in this system of equations are found in the table below:<br>
The symbols in this system of equations are found in the table below:<br>
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[[Image:symbols_table_NFF.jpg]]<br>
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[[Image:symbols_table.jpg]]<br>
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==Riboregulator==
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='''Conjugation'''=
='''Conjugation'''=
[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces] and [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T2K-4PT7X7G-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=fcacb99317376ced3df42e7e8178fc78 Rule-based modelling of conjugative plasmid transfer and incompatibility]
[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces] and [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T2K-4PT7X7G-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=fcacb99317376ced3df42e7e8178fc78 Rule-based modelling of conjugative plasmid transfer and incompatibility]

Revision as of 12:03, 20 July 2009


Delay Device

Negative Feedforward.jpg
Figure 1: Negative Feedforward model
Riboregulator delay.jpg
Figure 2: Riboregulator model

Mathematical Modeling

The Negative Feedforward model shown above can be expressed with the following set of ODEs (ordinary differential equations):
Negative feedforward ODEs 2.jpg
The Riboregulator model shown above can be expressed with the following set of ODEs:
Riboregulator ODEs.jpg
We would like to give credit to the Bologna '08 team and UNIPV-Pavia '08 team, who's project was useful in determining our own equations:
The symbols in this system of equations are found in the table below:
Symbols table.jpg

Conjugation

[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces] and [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T2K-4PT7X7G-1&_user=10&_rdoc=1&_fmt=&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=fcacb99317376ced3df42e7e8178fc78 Rule-based modelling of conjugative plasmid transfer and incompatibility]