Introduction
To make predictions for are plasmid transformed E.coli, a structured segregated model is designed in Simbiology. A graphical representation of the model was build in the block diagram editor . Afterwards reaction equations and parameters were added.
Description
We designed one model for the whole system and 3 models for 3 subsystems. The 3 subsystems are antifreeze, freeze and cell death. For more information about these 3 subsystems, we refer to the extended project description and the 3 modelling pages.
Refer to detailed project description: https://2011.igem.org/Team:KULeuven/Details
Ordinary differential equations
.pdf
(use simbiology2latex toolbox of igem kuleuven 2008 to become formula and ask Sarah to convert the latex-file to pdf)
There are in total 5 different kinetic equations we used in the model:
Transcription equation:
For most promoters, hill kinetics is used, it is a way of quantitatively describing cooperative binding processes, it was developed for hemoglobin in 1913. A Hill coefficient (n) is a measure for the cooperativity.
Translation equation:
RNA degradation:
Protein degration:
Assimiliation:
Full model
.Jpg full model
Parameter table
When no accurate parameters where found in literature we used these estimated values:
Transcription parameter
Translation parameter
RNA degradation parameter
Protein degradation parameter
Simulations
Sensitivity analysis
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