Team:Heidelberg/Modeling/Chemotaxis

From 2008.igem.org

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==Chemotaxis - Killing Model==
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== Chemotaxis - Killing Model ==
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Our detailed documentation "Model for Sensing Network and the Production of Colicins as the Killing Mechanism" includes the following information: <br><br>
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Our detailed documentation "Spatially Resolved Modeling of Colicin-Induced Killing and Chemotactic Sensing in ''Escherichia Coli''." includes the following information:
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- Introduction into the biological sytem <br>
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* Introduction into the biological sytem
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- Chemotaxis model <br>
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* Chemotaxis model
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- Parameter estimation <br>
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* Parameter estimation
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- Numerical methods <br>
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* Numerical methods
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- Results <br>
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* Results
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- Discussion <br> <br>
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* Conclusions
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You can download the documentation here and the summary of the modeling project can be downloaded [[Media:Summary.pdf|here]].
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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 ===
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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).
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* [[Team:Heidelberg/Modeling/Chemotaxis/simulation1 | 4-PDEs with killer in corner and prey evenly distributed]]
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* 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'''])
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* [[Team:Heidelberg/Modeling/Chemotaxis/simulation2 | 5-PDEs with killer in corner and prey evenly distributed]]
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** 4-PDE system
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* [[Team:Heidelberg/Modeling/Chemotaxis/simulation3 | 5-PDEs with killer in corner and prey evenly distributed, but 1/1000 AI-2 production rate]]
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** killer cells positioned in corner
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* [[Team:Heidelberg/Modeling/Chemotaxis/simulation4 | 5-PDEs with killer in corner and prey evenly distributed, but 4-fold chemotactic activity towards AI-2]]
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** prey evenly distributed
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* [[Team:Heidelberg/Modeling/Chemotaxis/simulation5 | 5-PDEs with prey in center and killer evenly distributed around them]]
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* 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'''])
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** 5-PDE system
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** killer cells positioned in corner
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** prey evenly distributed
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* 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'''])
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** 5-PDE system
 +
** killer cells positioned in corner
 +
** prey evenly distributed
 +
** 1/1000 AI-2 production rate
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* 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'''])
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** 5-PDE system
 +
** killer cells positioned in corner
 +
** prey evenly distributed
 +
** 8-fold chemotactic activity towards AI-2
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* 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'''])
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** 5-PDE system
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** killer cells evenly distributed
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** 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
Retrieved from "http://2008.igem.org/Team:Heidelberg/Modeling/Chemotaxis"