Kdiss (dissociation constant of Smad complexes)
koff_SB (off-rate of the SB/receptor interaction)
kon_SB (on-rate of the SB/receptor interaction)
This sbml file describes the RECI model from: "Mathematical modeling identifies Smad nucleocytoplasmic shuttling as a dynamic signal-interpreting system" by Bernhard Schmierer, Alexander L. Tournier, Paul A. Bates and Caroline S. Hill, Proc Natl Acad Sci U S A. 2008 May 6;105(18):6608-13. All parameter and species names are as in Figure S3 of the original publication. The original model was done in copasi. SB-431542 addition to a concentration of 10000 nM is set at 2700 sec. The initial concentration of SB, the time point of addition and the final concentration can be set by altering the parameters SB_0 , t_SB and SB_end . This model file has been used to reproduce Figures 2D and 5A from the research paper using SBMLodesolver. To get the results for the figures, sum the corresponding concentrations: fig 2D: nuclear EGFP-Smad2 = G_n + pG_n + G2_n + G4_n + 2* GG_n fig 5A (either n or c for nucleus or cytosol): monomeric Smad2 = S2_n/c + G_n/c monomeric P-Smad2 = pS2_n/c + pG_n/c Smad2/Smad4 complexes = S24_n/c + G4_n/c Smad2/Smad2 complexes = S22_n/c + G2_n/c + GG_n/c This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team. For more information see the terms of use . To cite BioModels Database, please use Le Novère N., Bornstein B., Broicher A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Published, Quantitative Kinetic Models of Biochemical and Cellular Systems Nucleic Acids Res., 34: D689-D691.
k_TGFb (rate of TGFb binding to receptors)
Developmental Signalling Lab, Cancer Research UK London Research Institute
Kdiss SB (dissociation constant of the SB/receptor interaction)