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Team:Freiburg Bioware/Modelling
From 2010.igem.org
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For the first two models we assumed reactions according to the law of mass action to create a model of ordinary differential equations (ODE). | For the first two models we assumed reactions according to the law of mass action to create a model of ordinary differential equations (ODE). | ||
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<h2>Model for Virus Production</h2> | <h2>Model for Virus Production</h2> | ||
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<h3>Reaction Scheme</h3> | <h3>Reaction Scheme</h3> | ||
| - | + | For the reaction scheme of the virus production we considered three compartments of the cell: the <b>extracellular space</b> (all quantities with the index <i>ext</i>), the <b>cytoplasm</b> (<i>cyt</i>) and th e<b>nucleus</b> (<i>nuc</i>). On the outside of the cell there are four principle plasmids - the plasmid coding for the <b>helper proteins</b> (<i>helper</i>), the <b>gene of interest</b> (<i>goi</i>) and two types of DNA coding for the <b>capsid proteins</b> (<i>capwt</i> [wild type], <i>capmod</i> [modified]).<br> | |
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<center> | <center> | ||
Revision as of 15:38, 21 October 2010
Modeling
For the modeling part we considered the three main parts:- the virus production
- the infection of a target cell
- the therapy
Model for Virus Production
Reaction Scheme
For the reaction scheme of the virus production we considered three compartments of the cell: the extracellular space (all quantities with the index ext), the cytoplasm (cyt) and th enucleus (nuc). On the outside of the cell there are four principle plasmids - the plasmid coding for the helper proteins (helper), the gene of interest (goi) and two types of DNA coding for the capsid proteins (capwt [wild type], capmod [modified]).
Reduced Reaction Scheme
Differential Equations
Model for Virus Infection
Reaction Scheme
Reduced Reaction Scheme
Differential Equations
