JSim JWS Models Page
This page allows users to run models from the JWS Online Models Database under JSim. To run these models online, you must have a Java plugin installed in your WWW browser. To run them in JSim on your own computer, download the model code and the JSim application. Either way, see Running JSim for instructions on how to use JSim. Since these models do not specify simulation time length or delta, these must be set by the user before running the model.
Return to complete JSim model archives.
Currently available models
cronwright: Metabolic Control Analysis of Glycerol Synthesis inSaccharomyces cerevisiae
martins: In situ kinetic analysis of glyoxalase I and glyoxalase II in Saccharomyces cerevisiae
goldbeter: A minimal cascade model for themitotic oscillator involving cyclin and cdc2 kinase.
bruggeman: The multifarious short-term regulation of ammonium assimilation of Escherichia coli: dissection using an in silico replica
- JSim version not yet available
curien: A kinetic model of the branch-point between the methionine and threonine biosynthesis pathways in Arabidopsis thaliana
bier: How yeast cells synchronize their glycolytic oscillations: a perturbation analytic treatment.
hornberg: Principles behind the multifarious control of signal transduction ERK phosphorylation and kinase/phosphatase control
lin3: None
lambeth: A Computational Model for Glycogenolysis in Skeletal Muscle
- JSim version not yet available
hoefnagel2: Time dependent responses of glycolytic intermediates in a detailed glycolytic model of Lactococcus lactis during glucose run-out experiments
holzhutter: The principle of flux minimization and its application to estimate stationary fluxes in metabolic networks
olsen: Mechanism of protection of peroxidase activity by oscillatory dynamics
rohwer1: Analysis of sucrose accumulation in the sugar cane culm on the basis of in vitro kinetic data
bakker: Roles of triosephosphate isomerase and aerobic metabolism in Trypanosoma brucei
teusink: Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry
hynne: Full-scale model of glycolysis in Saccharomyces cerevisiae.
rohwer2: Understanding glucose transport by the bacterial phosphoenolpyruvate:glycose phosphotransferase system on the basis of kinetic measurements in vitro
wolf: Transduction of Intracellular and Intercellular Dynamics in Yeast
kholodenko: Quantification of Short Term Signaling by the Epidermal Growth Factor Receptor
nielsen: Sustained oscillations in glycolysis: an experimental and theoretical study of chaotic and complex periodic behavior and of quenching of simple oscillations
bhartiya: Dynamic model of Escherichia coli tryptophan operon shows an optimal structural design
chassagnole1: Dynamic Modeling of the Central Carbon Metabolism of Eschericia coli
fuentes: Kinetics of intra- and intermolecular zymogen activation with formation of an enzyme-zymogen complex
chassagnole2: Control of the threonine-synthesis pathway in Escherichia coli :a theoretical and experimental approach
lin3moi: None
kofahl: Modelling the dynamics of the yeast pheromone pathway.
hoefnagel1: Metabolic Engineering of Lactic Acid Bacteria, the Combined Approach: Kinetic Modelling, Metabolic Control and Experimental Analysis.
poolman: Modelling photosynthesis and its control
Model development and archiving support at physiome.org provided by the following grants: NIH/NHLBI T15 HL88516-01 Modeling for Heart, Lung and Blood: From Cell to Organ, 4/1/07-3/31/11; NSF BES-0506477 Adaptive Multi-Scale Model Simulation, 8/15/05-7/31/08; NIH/NHLBI R01 HL073598 Core 3: 3D Imaging and Computer Modeling of the Respiratory Tract, 9/1/04-8/31/09; as well as prior support from NIH/NCRR P41 RR01243 Simulation Resource in Circulatory Mass Transport and Exchange, 12/1/1980-11/30/01 and NIH/NIBIB R01 EB001973 JSim: A Simulation Analysis Platform, 3/1/02-2/28/07.
