Team:KULeuven/Modeling

Modeling Overview

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