Team:Heidelberg/Modeling/Chemotaxis

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<li><a href="https://2008.igem.org/Team:Heidelberg/Parts/Characterization"><span><span>Characterization</span></span></a></li>
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<a>Modeling</a>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Modeling/Chemotaxis"><span><span>Chemotaxis - Killing</span></span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Modeling"><span><span>Overview</span></span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Modeling/Phage"><span><span>Phage Dynamics - model</span></span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Modeling/Chemotaxis"><span><span>Chemotaxis-Colicin</span></span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Modeling/Phage"><span><span>Phage Dynamics model</span></span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Sensing_Group/Cloning"><span>Cloning strategy</span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Sensing_Group/Notebook"><span>Notebook</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Sensing_Group/Notebook"><span>Notebook</span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_I/Cloning"><span>Cloning strategy</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_I/Cloning"><span>Cloning strategy</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_I/Notebook"><span>Notebook</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_I/Notebook"><span>Notebook</span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_II/Cloning"><span>Cloning strategy</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_II/Cloning"><span>Cloning strategy</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_II/Notebook"><span>Notebook</span></a></li>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/Killing_II/Notebook"><span>Notebook</span></a></li>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/visualization"><span><span>Visualization</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/material"><span><span>Material & Methods</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/material"><span><span>Material & Methods</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/team_meetings"><span><span>Team Meetings</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/team_meetings"><span><span>Team Meetings</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/seminar"><span><span>Seminar on Synthetic Biology</span></span></a>
<li><a href="https://2008.igem.org/Team:Heidelberg/Notebook/seminar"><span><span>Seminar on Synthetic Biology</span></span></a>
</ul>
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<li><a href="https://2008.igem.org/Team:Heidelberg/Project/Science_Communication"><span><span>Scientific Communication</span></span></a></li>
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      <li><a href="https://2008.igem.org/Team:Heidelberg/Human_Practice/Phips_the_Phage"><span><span>Phips the Phage</span></span></a></li>
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                              <li><a href="https://2008.igem.org/Team:Heidelberg/Human_Practice/Essay"><span><span>Essay</span></span></a></li>
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                              <li><a href="https://2008.igem.org/Team:Heidelberg/Human_Practice/Surveys"><span><span>Surveys</span></span></a></li>
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                              <li><a href="https://2008.igem.org/Team:Heidelberg/Human_Practice/Nobel_Prize"><span><span>Nobel Prize</span></span></a></li>
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<a href="https://2008.igem.org/Team:Heidelberg/Sponsors">Sponsors</a>
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<a href="https://2008.igem.org/Team:Heidelberg/Sponsors" style="color: white">Sponsors</a>
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-
==Chemotaxis - Killing Model==
+
== Chemotaxis - Killing Model ==
-
in progress...
+
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 [[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 ===
 +
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'''])
 +
** 4-PDE system
 +
** killer cells positioned in corner
 +
** 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'''])
 +
** 5-PDE system
 +
** killer cells positioned in corner
 +
** 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
 +
** killer cells positioned in corner
 +
** prey evenly distributed
 +
** 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'''])
 +
** 5-PDE system
 +
** killer cells positioned in corner
 +
** 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'''])
 +
** 5-PDE system
 +
** killer cells evenly distributed
 +
** 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"