Difference between revisions of "Team:KU Leuven/Modeling/Toulouse"
| Line 90: | Line 90: | ||
toulouse ran a FB analysis. | toulouse ran a FB analysis. | ||
When a FBA is set up. The metabolic network of the organism in question is represented as a matrix $\mathbf{S}$ | When a FBA is set up. The metabolic network of the organism in question is represented as a matrix $\mathbf{S}$ | ||
| − | of size $m \times n$ is filled with the stoichiometric constants of each reaction. | + | of size $m \times n$ is filled with the stoichiometric constants of each reaction. Each of the $m$ matrix |
| − | + | rows represents a unique compound. Similarly each of the n columns represents one unique reaction. Next | |
| + | a vector $\mathbf{v}$ of length $n$ is defined which contains the flux trough each reaction. Finally the | ||
| + | vector $mathbf{x}$ is defined to contain the concentrations of each metabolite. The steady state solution | ||
| + | in the insteresting one therefore: | ||
| + | $$ \frac{dx}{dt} = \mathbf{Sv} = 0 $$ | ||
| + | |||
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<h2>Colony level</h2> | <h2>Colony level</h2> | ||
<p> | <p> | ||
| − | + | <div class="more"><p>Learn more</p> | |
| − | + | </div> | |
| − | + | ||
</p> | </p> | ||
</a> | </a> | ||
Revision as of 19:09, 14 September 2015
Toulouse FBA Model
We cooperated with Toulouse on the modeling. Here we describe the Flux-Balance-Analysis the Toulouse team generously
performed for us.
Flux balance analysis is a widely used approach for studying the flow trough metabolic networks. In our
case we are interested in the Leucine and AHL production rates of the type A cells. To obtain these values
toulouse ran a FB analysis.
When a FBA is set up. The metabolic network of the organism in question is represented as a matrix $\mathbf{S}$
of size $m \times n$ is filled with the stoichiometric constants of each reaction. Each of the $m$ matrix
rows represents a unique compound. Similarly each of the n columns represents one unique reaction. Next
a vector $\mathbf{v}$ of length $n$ is defined which contains the flux trough each reaction. Finally the
vector $mathbf{x}$ is defined to contain the concentrations of each metabolite. The steady state solution
in the insteresting one therefore:
$$ \frac{dx}{dt} = \mathbf{Sv} = 0 $$
Contact
Address: Celestijnenlaan 200G room 00.08 - 3001 Heverlee
Telephone n°: +32(0)16 32 73 19
Mail: igem@chem.kuleuven.be
