Team:Paris/Network analysis and design/System improvements

From 2008.igem.org

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{{Paris/Menu}}
{{Paris/Menu}}
{{Paris/Header|System Improvements}}
{{Paris/Header|System Improvements}}
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{{Paris/Section_contents_analysis}}
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== Description ==
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== Analysis ==
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<center>
<center>
{|
{|
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| style="background: #D4E2EF;"|Core system
| style="background: #D4E2EF;"|Core system
| Figure core system
| Figure core system
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| [[Image:Orgsad.gif‎]]
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| [[Image:Core0.png|200px|center|Simulation of the core system]]
| Links core system
| Links core system
|- style="background: #dddddd;"
|- style="background: #dddddd;"
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| style="background: #D4E2EF;" |Modular system
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| style="background: #D4E2EF;" |Bimodular system
| Figure modular system
| Figure modular system
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| [[Image:Orgstar.gif]][[Image:Orgstar.gif]]
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| [[Image:System4.png|200px|center|Simulation of the bimodular system]]
| Links Garcia-Ojalvo
| Links Garcia-Ojalvo
|- style="background: #dddddd;"
|- style="background: #dddddd;"
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| style="background: #D4E2EF;" |Resulting system
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| style="background: #D4E2EF;" |Unimodular system
| Figure resulting system
| Figure resulting system
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| [[Image:Orgstar.gif]][[Image:Orgstar.gif]][[Image:Orgstar.gif]]
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| [[Image:Oscillating.jpg]]
| Links resulting
| Links resulting
|- style="background: #dddddd;"  
|- style="background: #dddddd;"  
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!colspan="4"  | Synchronized oscillations should be given by S2.
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!colspan="4"  | Synchronized oscillations should be given by the unimodular system.
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*S2: it amounts to replace single interaction by more complex interactions: should create delay  
*S2: it amounts to replace single interaction by more complex interactions: should create delay  
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we analyze both systems for their capacity to generate oscillations. S2 seems more promising. Thus we further analize S2 for its capacity to generate ''synchrionized'' oscillations.  
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we analyze both systems for their capacity to generate oscillations.  
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S2 seems more promising.  
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Thus we further analize S2 for its capacity to generate ''synchrionized'' oscillations (using different initial concentrations and cell populations variability).  
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== Conclusion ==
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== Navigation ==
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*[[Team:Paris/Network_analysis_and_design/System_improvements/Description|Description]]
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*[[Team:Paris/Network_analysis_and_design/System_improvements/Analysis|Analysis]]
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*[[Team:Paris/Network_analysis_and_design/System_improvements/Conclusions|Conclusion]]
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Latest revision as of 00:42, 30 October 2008

System Improvements


Contents

Description

Analysis

Name Description Evaluation Links
Core system Figure core system
Simulation of the core system
 Links core system
Bimodular system Figure modular system
Simulation of the bimodular system
 Links Garcia-Ojalvo
Unimodular system Figure resulting system File:Oscillating.jpg Links resulting
Synchronized oscillations should be given by the unimodular system.


Core system does not oscillate. How can we enhance it?

We need a 'delay' so we can:

1 add more genes to the circuit

2 use quorum sensing (qs)

we chose quorum sensing that can allowed both 'delay' and population synchonization. two ways to add it:

  • S4: Inspired from Garcia-Ojalvo: oscillating repressilator + oscillating qs module = synchronized oscillations
  • S2: it amounts to replace single interaction by more complex interactions: should create delay

we analyze both systems for their capacity to generate oscillations.

S2 seems more promising.

Thus we further analize S2 for its capacity to generate synchrionized oscillations (using different initial concentrations and cell populations variability).

Conclusion

Navigation


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