Team:Michigan/Modeling

From 2013.igem.org

(Difference between revisions)
(→Introduction)
(→Introduction)
Line 43: Line 43:
     • optimization
     • optimization
 +
===SimBiology===
-
• SimBiology
+
• numerical approximation
-
    • numerical approximation
+
• diagram / schematic
-
    • diagram / schematic
+
===Model of Recombinase Expression===
===Model of Recombinase Expression===

Revision as of 23:54, 27 September 2013

Xayona Website Template

Best model.jpg

Contents

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

SimBiology

• numerical approximation

• diagram / schematic

Model of Recombinase Expression

Model of the Switch

Model of Inducible Hbif

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

SimBiology:

Expression.jpg

Expression Model Derivation

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

SimBiology:

Switch.jpg

Switch Model Derivation

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 Derivation

Future Directions

Data!

This is a template page. READ THESE INSTRUCTIONS.
You are provided with this team page template with which to start the iGEM season. You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki. You can find some examples HERE.
You MUST have all of the pages listed in the menu below with the names specified. PLEASE keep all of your pages within your teams namespace.


Home Team Official Team Profile Project Parts Submitted to the Registry Modeling Notebook Safety Attributions
Retrieved from "http://2013.igem.org/Team:Michigan/Modeling"