Team:Michigan/Modeling

From 2013.igem.org

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Optimization of ON:
Optimization of ON:
[[File:InducibleHbifModel7-2.png |347px|center]]
[[File:InducibleHbifModel7-2.png |347px|center]]
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SimBiology:
[[File:InducedHbif.jpg|center]]
[[File:InducedHbif.jpg|center]]

Revision as of 23:24, 27 September 2013

Xayona Website Template

Contents

Overview

Best model.jpg

Model of Recombinase Expression

Model of the Switch

Model of Inducible Hbif

Introduction

switch modeling

• goals: produce both states of switch, use model to optimize switch

mass action modeling

• what is mass action

• pros of mass action modeling, i.e. why we used it

• form of mass action models/solvability doc

analytical modeling:

• benefits 

   • naturally standardized
   
   • given parameters, it precisely predicts behavior

   • accurately predicts the data needed to determine parameters

   • allows avoidance of numerical errors like rounding

• ERSESCO 

   • equation

   • reduction

   • solution

   • equilibration

   • stabilization

   • calibration

   • optimization

File:Solvability.pdf

Expression Model

ExpressionModelFigure.png

Equation:

ExpressionModel1.png

Reduction: None

Solution:

ExpressionModel2.png

Equilibration:

ExpressionModel3.png

Stabilization:

ExpressionModel3-1.png

Calibration:

ExpressionModel4.png
ExpressionModel5.png

Optimization:

ExpressionModel6.png
Expression.jpg

Expression Model (Link)

Switch Model

SwitchModelFigure.png

Equation:

SwitchModel1.png
SwitchModel2.png

Reduction:

SwitchModel3.png

Solution:

SwitchModel3-1.png

Equilibration:

SwitchModel4-1.png

Stabilization:

SwitchModel4-2.png

Calibration:

SwitchModel5-1.png
SwitchModel5-2.png

Optimization:

SwitchModel6.png
Switch.jpg

Switch Model (Link)

Inducible Hbif Model

InducibleHbifModelFigure.png

Equation:

InducibleHbifModel1.png
InducibleHbifModel2.png

Reduction:

InducibleHbifModel3.png

Solution:

InducibleHbifModel4.png

Equilibration:

InducibleHbifModel5.png

Stabilization:

InducibleHbifModel5-2.png

Calibration:

InducibleHbifModel6-1.png
InducibleHbifModel6-2.png
InducibleHbifModel6-3.png

Optimization of Hbif:

InducibleHbifModel7-1.png

Optimization of ON:

InducibleHbifModel7-2.png

SimBiology:

InducedHbif.jpg

Inducible Hbif Model (Link)

Future Directions

Data!

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