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Team:Heidelberg/Modeling/Chemotaxis
From 2008.igem.org
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| - | ==Chemotaxis - Killing Model== | + | == Chemotaxis - Killing Model == |
| - | Our detailed documentation " | + | Our detailed documentation "Spatially Resolved Modeling of Colicin-Induced Killing and Chemotactic Sensing in ''Escherichia Coli''." includes the following information: |
* Introduction into the biological sytem | * Introduction into the biological sytem | ||
* Chemotaxis model | * Chemotaxis model | ||
| Line 473: | Line 473: | ||
* Conclusions | * Conclusions | ||
| - | You can download the documentation [[Media:Documentation_Sensing_Colicin.pdf| | + | You can download the documentation on [[Media:Documentation_Sensing_Colicin.pdf|Spatially Resolved Modeling of Colicin-Induced Killing and Chemotactic Sensing in ''Escherichia Coli'']]. Further we have made a [[Media:Summary.pdf|summary]] of the complete modeling group for non-mathematicians. |
=== Simulation movies === | === Simulation movies === | ||
| - | Below is a list of simulation movies. Specific parameters can be taken from our documentation. | + | Below is a list of simulation movies. Specific parameters can be taken from our documentation. All simulations are in ogg vorbis format (see http://www.vorbis.com for help). |
| - | * movie 1 ([https://static.igem.org/mediawiki/2008/7/7f/HD_4PDE_3D.ogg 3D], [https://static.igem.org/mediawiki/2008/6/6d/HD_4PDE_2D.ogg 2D]) | + | * movie 1 ([https://static.igem.org/mediawiki/2008/7/7f/HD_4PDE_3D.ogg '''3D'''], [https://static.igem.org/mediawiki/2008/6/6d/HD_4PDE_2D.ogg '''2D''']) |
** 4-PDE system | ** 4-PDE system | ||
** killer cells positioned in corner | ** killer cells positioned in corner | ||
** prey evenly distributed | ** prey evenly distributed | ||
| - | * movie 2 ([https://static.igem.org/mediawiki/2008/f/f8/HD_5PDE_a_3D.ogg 3D], [https://static.igem.org/mediawiki/2008/8/8a/HD_5PDE_a_2D.ogg 2D]) | + | * movie 2 ([https://static.igem.org/mediawiki/2008/f/f8/HD_5PDE_a_3D.ogg '''3D'''], [https://static.igem.org/mediawiki/2008/8/8a/HD_5PDE_a_2D.ogg '''2D''']) |
** 5-PDE system | ** 5-PDE system | ||
** killer cells positioned in corner | ** killer cells positioned in corner | ||
| - | * movie 3 ([https://static.igem.org/mediawiki/2008/2/2f/HD_5PDE_a_0-01AI2_3D.ogg 3D], [https://static.igem.org/mediawiki/2008/1/10/HD_5PDE_a_0-01AI2_2D.ogg 2D]) | + | ** prey evenly distributed |
| + | * movie 3 ([https://static.igem.org/mediawiki/2008/2/2f/HD_5PDE_a_0-01AI2_3D.ogg '''3D'''], [https://static.igem.org/mediawiki/2008/1/10/HD_5PDE_a_0-01AI2_2D.ogg '''2D''']) | ||
** 5-PDE system | ** 5-PDE system | ||
** killer cells positioned in corner | ** killer cells positioned in corner | ||
** prey evenly distributed | ** prey evenly distributed | ||
** 1/1000 AI-2 production rate | ** 1/1000 AI-2 production rate | ||
| - | * movie 4 ([https://static.igem.org/mediawiki/2008/1/15/HD_5PDE_a_4-fold-chemotaxis_3D.ogg 3D], [https://static.igem.org/mediawiki/2008/9/9b/HD_5PDE_a_4-fold-chemotaxis_2D.ogg 2D]) | + | * movie 4 ([https://static.igem.org/mediawiki/2008/1/15/HD_5PDE_a_4-fold-chemotaxis_3D.ogg '''3D'''], [https://static.igem.org/mediawiki/2008/9/9b/HD_5PDE_a_4-fold-chemotaxis_2D.ogg '''2D''']) |
** 5-PDE system | ** 5-PDE system | ||
** killer cells positioned in corner | ** killer cells positioned in corner | ||
** prey evenly distributed | ** prey evenly distributed | ||
| - | ** | + | ** 8-fold chemotactic activity towards AI-2 |
| - | * movie 5 ([https://static.igem.org/mediawiki/2008/8/81/HD_5PDE_b_3D.ogg 3D], [https://static.igem.org/mediawiki/2008/1/11/HD_5PDE_b_2D.ogg 2D]) | + | * movie 5 ([https://static.igem.org/mediawiki/2008/8/81/HD_5PDE_b_3D.ogg '''3D'''], [https://static.igem.org/mediawiki/2008/1/11/HD_5PDE_b_2D.ogg '''2D''']) |
** 5-PDE system | ** 5-PDE system | ||
** killer cells evenly distributed | ** killer cells evenly distributed | ||
** prey positioned in center | ** prey positioned in center | ||
Latest revision as of 22:54, 29 October 2008
Chemotaxis - Killing Model
Our detailed documentation "Spatially Resolved Modeling of Colicin-Induced Killing and Chemotactic Sensing in Escherichia Coli." includes the following information:
- Introduction into the biological sytem
- Chemotaxis model
- Parameter estimation
- Numerical methods
- Results
- Conclusions
You can download the documentation on Spatially Resolved Modeling of Colicin-Induced Killing and Chemotactic Sensing in Escherichia Coli. Further we have made a summary of the complete modeling group for non-mathematicians.
Simulation movies
Below is a list of simulation movies. Specific parameters can be taken from our documentation. All simulations are in ogg vorbis format (see http://www.vorbis.com for help).
- movie 1 (3D, 2D)
- 4-PDE system
- killer cells positioned in corner
- prey evenly distributed
- movie 2 (3D, 2D)
- 5-PDE system
- killer cells positioned in corner
- prey evenly distributed
- movie 3 (3D, 2D)
- 5-PDE system
- killer cells positioned in corner
- prey evenly distributed
- 1/1000 AI-2 production rate
- movie 4 (3D, 2D)
- 5-PDE system
- killer cells positioned in corner
- prey evenly distributed
- 8-fold chemotactic activity towards AI-2
- movie 5 (3D, 2D)
- 5-PDE system
- killer cells evenly distributed
- prey positioned in center
