Downloads of CellML Examples | PDF |
Table of Contents
Following is a list of downloadable versions of each CellML example model. If you have your browser set up to view text files served with the “text/xml” MIME type, then you can have a look at the XML file. If not, you can save that file to your harddrive and open it with a text editor. A “pretty-printed” browsable HTML version of the XML file is available
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note that you cannot download and save the HTML version for later viewing since it makes use of stylesheets for formatting. If you wish to save or print out the “pretty-printed” version of the XML, a PDF version is also available. A gzipped tarball (the equivalent of a zip file) including the model's documentation, the raw XML and the pretty-printed PDF version of the XML is also available for each example.
You may download gzipped tarballs that include all of the CellML example models:
all_cellml_models_xml.tar.gz — contains the XML version of each CellML model only.
all_cellml_models_pdf.tar.gz — contains the PDF version of each CellML model only.
Simple Membrane / Electrophysiological Model
Simple Electrophysiological Model With Encapsulation
Simple Reaction / Pathway Model
Simple Two Reaction Pathway Model
Simple Two Reaction Pathway Model with Encapsulation
Carbohydrate Metabolism
Glycolysis
Glycolysis With Encapsulation
Gluconeogenesis
Pentose Phosphate Pathway
Electron Transport Chain
TCA Cycle
Lipid Metabolism
Fatty Acid Activation and Oxidation
Oxidation of Odd Chain Fatty Acids
Fatty Acid Synthesis
Cholesterol Biosynthesis
Phospholipid Synthesis
Glycolipid Synthesis
Triacylglycerol Synthesis
Nitrogen Metabolism
Transamination
Pyrimidine Nucleotide Synthesis
Purine Nucleotide Synthesis
Purine Nucleotide Degradation
Pyrimidine Nucleotide Degradation UMP and CMP
Pyrimidine Nucleotide Degradation dTMP
Amino Acid Catabolism
The Urea Cycle
Non Essential Amino Acid Synthesis
Albrecht et al Multiple Modes of Calcium-induced Calcium Release in Sympathetic Neurons (2001)
Aon and Cortassa, Modulation of a Metabolic Network by Cytoskeletal Organisation and Dynamics (2002)
Adrian et al., Voltage Clamp Experiments in Striated Muscle Fibres (1970)
Bakker et al. Modelling Glycolysis in Trypanosoma brucei (1997)
Bakker et al. Glycosomes Protects Trypanosomes From Glycolysis (2000)
Baylor et al. Calcium Sparks in Skeletal Muscle Fibers (2002)
Beeler-Reuter Mammalian Ventricular Model (1977)
Bertram et al Modulatory Role for CRAC in Pancreatic Beta-Cell Electrical Activity (1995)
Bertram et al Phantom Burster Model For Pancreatic Beta-Cells (2000)
Bertram et al G-Protein Specificity In Synaptic Signal Processing (2002)
Bertram and Sherman, A Calcium-based Phantom Bursting Model for Pancreatic Islets (2004)
Bhalla-Iyengar Adenylyl Cyclases 1/8 and 2 Pathway Model (1999)
Bhalla-Iyengar Calcineurin (CaN/PP2B) Pathway Model (1999)
Bhalla-Iyengar Calmodulin (CaM) Pathway Model (1999)
Bhalla-Iyengar Calmodulin Kinase II (CaMKII) Pathway Model (1999)
Bhalla-Iyengar Epidermal Growth Factor (EGF) Pathway Model (1999)
Bhalla-Iyengar Phospholipase 2A (PLA2) Pathway Model (1999)
Bhalla-Iyengar Phospholipase C (PLC) beta Pathway Model (1999)
Bhalla-Iyengar Phospholipase C (PLC) gamma Pathway Model (1999)
Bhalla-Iyengar Protein Kinase A (PKA) Pathway Model (1999)
Bhalla-Iyengar Protein Kinase C (PKC) Pathway Model (1999)
Bhalla-Iyengar Protein Phosphatase 1 (PP1) Pathway Model (1999)
Bhalla-Iyengar Ras Activation Pathway Model (1999)
Bindschadler and Sneyd, A Bifurcation Analysis of Two Coupled Calcium Oscillators (2001)
>Bondarenko et al., Modelling the Action Potential of Mouse Ventricular Myocytes, (2004)
Bonhoeffer et al. Modelling the Population Dynamics of Virus Infected Cells (2000)
Boyett et al Modelling The Effect Of Intracellular Ca2+ On Sinoatrial Node Action Potentials (2001)
Chang and Fujita, A Kinetic Model of the Thiazide-Sensitive Na-Cl Cotransporter (1999)
Chang and Fujita, Mathematical Models of Ionic Transport in the Distal Tubule of the Rat, (2001)
Chassagnole et al Threonine-Synthesis Pathway In Escherichia coli Model (2001)
Chay Extracellular And Intracellular Calcium Effects On Pancreatic Beta-Cells Model (1997)
Chay-Lee-Fan Modelling Intracellular Ca2+ Spikes in Non-excitable Cell Models (1995)
Chen et al. Modelling the Budding Yeast Cell Cycle (2000)
Chen et al. An Integrative Analysis of Cell Cycle Control in Budding Yeast, (2004)
Ciliberto and Tyson, A Mathematical Model for the Early Development of the Sea Urchin Embryo (2000)
Ciliberto et al., Modelling the Morphogenesis Checkpoint in the Budding Yeast Cell Cycle (2003)
Condorelli-George Model of Soluble Guanylate Cyclase Activation by Nitric Oxide (2001)
Cortassa et al., Modelling Mitochondrial Energy Metabolism (2003)
Cortassa et al., Modelling Mitochondria As Biological Oscillators, (2004)
Clancy-Rudy Markovian Model of Ion Channels (2001)
Clancy and Rudy, A Single Mutation Underlies Brugada and LQT (2002)
Courtemanche-Ramirez-Nattel Mathematical Model Of A Human Atrial Action Potential (1998)
Dawson et al., Kinetic Models of the Inositol Trisphosphate Receptor (2003)
Demir et al Mathematical Model Of A Rabbit Sinoatrial Node Cell (1994)
Demir et al Model Of Parasympathetic Modulation Of Pacemaker Rate (1999)
Demiray's Exponential Constitutive Material Law, 1981
De Vries-Sherman Enhancement Of Emergent Bursting In Pancreatic Beta-Cells Model (2000)
De Vries-Sherman From Spikers To Bursters Via Heterogeneity Model (2001)
Dumaine et al. Modelling the Ionic Mechanisms Underlying Brugada Syndrome (1999)
De Young-Keizer IP3-Mediated Ca2+ Release (1992)
Di Francesco-Noble Purkinje Fibre Model (1985)
Modelling The Ion Currents Underlying Sinoatrial Node Pacemaker Activity, Dokos et al., 1996
A Model of Sinoatrial Node Vagal Control, Dokos et al., 1996
Drouhard-Roberge Sodium Current Model (1987)
>Maly et al., Modelling The In Vitro Kinetics Of The Anti-Cancer Agent Topotecan, (2004)
Ebihara-Johnson Sodium Current Model (1980)
Faber-Rudy Modification of the Luo-Rudy Mammalian Ventricular Model II (2000)
Fall-Keizer Mitochondria and Ca2+ Signalling
Fenton-Karma Simplified Ventricular Myocyte Model (1998)
Fink et al A Model of Ca2+ Waves in Neuroblastoma Cells (2000)
FitzHugh-Nagumo Simplified Cardiac Myocyte Model (1961)
Flynn et al., A Model-Based Approach for Assessing the Efficacy of Radioimmunotherapy, (2002)
Fridlyand et al., Modelling Ca2+ Flux in Pancreatic Beta-cells (2003)
Friel [Ca2+]i Oscillations In Sympathetic Neurons (1995)
Gall-Susa Na/Ca Exchange in Models for Pancreatic Beta-Cells (1999)
Model I
Model II
Model III
Gardner et al Controlling Cell Cycle Dynamics Using A Reversibly Binding Inhibitor, (1998)
Goforth et al. Calcium-activated K+ Channels of Pancreatic Beta Cells (2002)
Goldbeter, A Model for Circadian PER Oscillations in Drosophila, (1995)
Greenstein et al., Role of Ito1 in Shaping Action Potential Morphology and Duration, (2000)
Grossman et al Modelling the Kinetics of Plasma Virus Following the Initiation of Therapy, (1998)
The Guccione Constitutive Material Law, (1991)
Halloy et al The Follicular Automaton Model For Hair Cycles, (2002)
Hatzimanikatis-Lee-Bailey Model of the Regulation of the G1-S Transition of the Cell Cycle (1999)
Hefti et al. Fibroblast Growth Factor Signalling in Cardiac Myocyte Hypertrophy (1997)
Herz et al., Modelling Viral Dynamics In Vivo (1996)
Heyd and Drew, A Mathematical Model for the Elongation of a Peptide Chain (2003)
Hilemann-Noble Atrial Cell Model (1987)
Hodgkin-Huxley Squid Axon Model (1952)
Hoefnagel et al. Metabolic Engineering of Lactococcus lactis, (2002)
Hynne et al. Full-scale model of glycolysis in Saccharomyces cerevisiae, (2001)
Huang-Ferrell Mitogen-Activated Protein Kinase (MAPK) Cascade (1996)
Hunter-McCulloch-ter Keurs Mechanical Properties Of Cardiac Muscle Model (1998)
Hunter-McNaughton-Noble Polynomial Model (1975)
Iber and Maini, A Mathematical Model for Germinal Centre Kinetics and Affinity Maturation, (2002)
Iyer et al., A Computational Model of the Human Left-Ventricular Epicardial Myocyte, (2004)
Joseph et al., Modelling Human Gastric Acid Secretion, (2003)
Jafri-Rice-Winslow Ventricular Model (1998)
Keener Diffusion Induced Oscillatory Insulin Secretion (2001)
Keizer-Levine RyR Adaptation And Ca2+ Oscillations (1996)
Kesmir and De Boer, Modelling the Kinetics of Germinal Centre Reactions (1999)
Kholodenko et al.Quantification of EGF Receptor Signalling (1999)
Kirschner and Webb, A Model for Treatment Strategy in the Chemotherapy of AIDS, (1996)
Kirschner and Panetta, Modelling Immunotherapy of the Tumour-Immune In


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