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Team:TUDelft/Modeling
From 2009.igem.org
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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. | 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. | ||
='''Conjugation'''= | ='''Conjugation'''= | ||
| - | Using the paper "[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces]", we established the assumptions and | + | Using the paper "[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces]", we established the assumptions and parameters that would be needed for the . |
| + | =='''Assumptions'''== | ||
| + | |||
| + | =='''Parameters'''== | ||
| + | *Surface area of media (A) | ||
| + | *Initial colony radius (r_0) | ||
| + | *Specific growth rate (g_n) | ||
| + | *Colony radial growth rate (g_r) | ||
| + | *Maximum numbers of cells sustained by system (N_max) | ||
| + | *Initial number of donors (N_d) and recipients (N_r) | ||
| + | All these parameters can be determined experimentally, or by literary research into previous conjugation experiments. | ||
| + | =='''Spatial distribution of bacteria'''== | ||
| + | |||
| + | =='''Growth of colonies'''== | ||
| + | |||
| + | =='''Contact between colonies'''== | ||
| + | |||
| + | =='''Conjugation modeling'''== | ||
| + | |||
| + | =='''Final cell number'''== | ||
{{Template:TUDelftiGEM2009_end}} | {{Template:TUDelftiGEM2009_end}} | ||
Revision as of 10:02, 22 July 2009
Delay Device
Figure 1: Negative Feedforward model
Figure 2: Riboregulator model
Mathematical Modeling
The Negative Feedforward model shown above can be expressed with the following set of ODEs (ordinary differential equations):
The Riboregulator model shown above can be expressed with the following set of ODEs:
The symbols in this system of equations are found in the table below:
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.
Conjugation
Using the paper "[http://www3.interscience.wiley.com/journal/118837812/abstract?CRETRY=1&SRETRY=0 A model for bacterial conjugal gene transfer on solid surfaces]", we established the assumptions and parameters that would be needed for the .
Assumptions
Parameters
- Surface area of media (A)
- Initial colony radius (r_0)
- Specific growth rate (g_n)
- Colony radial growth rate (g_r)
- Maximum numbers of cells sustained by system (N_max)
- Initial number of donors (N_d) and recipients (N_r)
All these parameters can be determined experimentally, or by literary research into previous conjugation experiments.
Spatial distribution of bacteria
Growth of colonies
Contact between colonies
Conjugation modeling
Final cell number
