JSim Consolidated Model Database
Showing 151 - 200 of 433 models found. [New Search]
An enzyme E is synthesized at a constant rate, and degraded in a first order process, -ke*E, only when it is unbound. Input of S is sinusoidal. The system amplifies to give an oscillation in product P. From Reich and Selkov 1981 and really from Selkov 1968.
- Key terms: enzyme lysis, chaos, hydrolysis, synthesis, degradation, energy metabolism, dissociation constant, first order reaction, proteins
- EnzLysis
Veloicty profiles in straight cylinders. Poiseuille Flow is parabolic (Model 2). Slip at wall is Roevros (Model 1) Two phase flow model (Wang Model 3) has lower viscosity at wall.
- Key terms: intravascular velocity, shear rate, viscosity, artery, Poiseuille Flow, blood flow
- VelocityProfiles
Highly-integrated human, a closed loop cardiopulmonary model composed of a four-chamber varying-elastance heart, a pericardium, a systemic circ, a pulmonary circ, airways mechanics, baroreceptors, gas exch, blood gas handling, coronary circ, and peripheral chemoreceptors.
- Key terms: cardiovascular, pulmonary, cardiopulmonary, gas exchange, blood gas handling, pericardium, heart, systemic circulation, pulmonary circulation, coronary circulation, lumped parameter, baroreceptor, chemoreceptor, oxygen, carbon dioxide, bicarbonate, carboxyhemoglobin, pH, nitrogen, airway mechanics, integrated physiology, Integrative, Virtual Soldier, Highly-integrated human
- HighlyIntegHuman
A closed loop cardiopulmonary model composed of a four-chamber varying-elastance heart, a pericardium, a systemic circulation, a pulmonary circulation, airways mechanics, baroreceptors, gas exchange, blood gas handling, coronary circulation, peripheral chemoreceptors and selectable interventions.
- Key terms: cardiovascular, pulmonary, cardiopulmonary, gas exchange, blood gas handling, pericardium, penetrating injuries, Valsalva maneuver, FVC maneuver, heart, systemic circulation, pulmonary circulation, coronary circulation, lumped parameter, baroreceptor, chemoreceptor, oxygen, carbon dioxide, bicarbonate, carboxyhemoglobin, pH, nitrogen, airway mechanics, integrated physiology, integrative, Data, Virtual Soldier
- HighlyIntHuman_wIntervention
Hodgkin and Huxley (HH 1952d): Nerve action potential for squid giant axon. Quantitative model of time and voltage-dependent transmembrane currents for Na+, K+, and a leak current, Ileak. Centerpiece for Nobel prize.
- Key terms: squid nerve action potential, ionic currents, sodium, potassium, voltage clamp, Nernst, neuron, Publication, Cell physiology, PMID2185861
- Hodgkin_Huxley1952
This model represents changes of blood viscosity due to the Fahraeus-Lindqvist effect as observed by Pries, Secomb et al. for flow in the rat mesentery.
- Key terms: Fahraeus-Lindqvist effect, in vivo, blood viscosity, microvasculature, discharge hematocrit, vessel diameter, Cardiovascular System, Microcirculation, blood flow
- InVivoViscosity
This is a reproduction of the 4 state model of a cardiac sarcomere originally developed by Landesberg and Sideman. The particular version presented here was used in Yaniv, Sivan and Landesberg Am J Physiol 288:H389-H399, 2005.
- Key terms: Crossbridge, Cardiac Muscle, Sarcomere, Excitation-Contraction Coupling, Cardiovascular System, Cardiac_contraction, Landesberg_4-State
- Yaniv_4-State_2005
Models two compartments with a single substance passively exchanging between the two compartments, plus first order binding to solute Z to form ZC, both of which are confined to V1.
- Key terms: Course, compartment, compartmental, tutorial, exchange, multiple compartments, flux, steady state, binding kinetics, buffering
- Comp2.Binding
A closed loop cardiopulmonary model composed of a four-chamber varying-elastance heart, a pericardium, a systemic circulation, a pulmonary circulation, and a coronary circulation.
- Key terms: cardiovascular, pericardium, heart, systemic circulation, pulmonary circulation, coronary circulation, lumped parameter, integrated physiology, Lu, Clark, baroreceptor, blood pressure
- Lumped_parameter_circulation
A closed loop circulatory model with varying elastance heart, pulmonary, coronary and systemic circulatory loops and actively regulating arterioles in the systemic circulation responding to pressure and shear stress on the vessel walls.
- Key terms: Closed loop circulatory model, Vasoactive response, Pressure, Shear stress, Local regulation
- Lumped_Param_Circ_wReg
Single compliant tank driven by pleural pressure. This is the simplest lung model possible.
- Key terms: lung mechnanics, respiratory minute volume, elastance pulmonary compliance, airway resistance, air flow, pleural pressure, tidal volume, functional residual capacity FRC, total lung volume TLV, Tutorial, air-blood gas exchange, gas buffers
- Lung_RC_P
Multiple tracer dilution estimates of D- and 2-deoxy-D-glucose uptake by the heart using a three region, 7-path, Blood-Tissue-Exchange (BTEX) model for albumin, L-Glucose, D-Glucose, and deoxy-Glucose. From Kuikka J, Levin M, Bassingthwaighte JB 1986 paper.
- Key terms: isolated heart preparation, coronary transport function, MPC, Reproducible, myocardial transsarcolemmal flux, L-glucose, dogs, rabbits, Data, Publication, PMID3510568
- Kuikka1986BTEX30MP
A mathematical model of metabolic insulin signaling pathways based on the work of Ahmad Sedaghat, Arthur Sherman and Michael Quon [2002, AM J Physiol Endocrinol Metab, 283,E1084-E1101].
- Key terms: signal transduction, metabolism, insulin resistance, GLUT4, glucose, feedback, data, Publication
- Sedaghat2002_insulin_signal
The Michailova-McCulloch model extends the Winslow Jaffri Rice model by adding the buffering by MgATP and MgADP as well as by calmodulin.
- Key terms: ventricular myocyte, ATP, ADP, Ca2+ concentration, myoplasm, Mg2+, MgATP, CaATP, CaADP, MgADP, cell physiology, action potential, calmodulin
- Michailova_McCulloch2001
This model simulates the electophysiological effect of inexcitable cardiac fibroblast when coupled with cardiac myocytes.
- Key terms: Myoctes, Fibroblasts, Action potential, Action potential duration, Upstroke velocity, Publication, Cell Physiology, PMID17999190
- Myocyte_Fibroblast_Coupling
Dose dependency of therapeutic monoclonal antibody (mAb), 2F8, binding to epidermal growth factor receptor (EGFR).
- Key terms: Pharmacokinetics, compartment, compartmental model, epidermal growth factor receptor, EGFR, monoclonal antibody, mAb, 2F8, saturation, binding, compartment, data
- PK_van_Bueren_2006
Noble's 1998 improved guinea-pig ventricular cell model. It incorporates a diadic space, rapid and slow potassium currents and length and tension-dependent processes.
- Key terms: cell physiology, action potential, Publication, potassium current, ventricular cell, calcium, sarcoplasmic reticulum, PMID9487284
- NobleVarghese98
This model describes the kinetics of an enzymatic reaction where an inhibitor can bind to the enzyme in a non-competitive manner.
- Key terms: Transport Physiology, Enzymatic Reaction, Inhibition, Enzyme, Non-competitive Inhibition, Michaelis-Menten Kinetics
- Non_Competitive_Inhibition
Multiple tracer dilution estimates of D- and 2-deoxy-D-glucose uptake by the heart using a three region, 7-path, Blood-Tissue-Exchange (BTEX) model. Model fit to all experiments published in Kuikka et al. 1986 paper (See model #0163 for more detatils).
- Key terms: isolated heart preparation, coronary transport function, MPC, Reproducible, myocardial transsarcolemmal flux, L-glucose, dogs, rabbits, Data, PDE, BTEX
- Kuikka1986experiment
This model simulates the diffusion of a substance through a region with a constant diffusivity and different solubilities inside and outside the region.
- Key terms: Partition coefficient, Solubility, Diffusion, One region, Transport physiology, one slab, PDE
- One_Slab_Diffusion_Partition
O2 and CO2 exchange between alveolar air and pulmonary capillary and tissue capillary and metabolic reaction with specified Respiratory Quotient
- Key terms: lung, compartmental, gas-blood exchange, hemoglobin, oxygen, carbon dioxide, recirculation, alveolar, capillary
- O2_CO2_Recirc_4Comp_Hb
This model reproduces the action potential recorded experimentally for epicardial myocytes isolated from the adult rat left ventricle (Pandit et al. 2001).
- Key terms: Action potential, Cardiac myocytes, Action potential duration, Transmural heterogeneity, publication, Cell Phsyiology, PMID11720973
- Pandit_et_al_2001
This model illustrates the variation in cell distribution from that which would be expected by the division of flow at a microvascular bifurcation.
- Key terms: Hematocrit, Phase separation, Microvascular flow, In vivo, bifurcation, Cardiovascular system, Microcirculation, Publication
- Phase_Separation
Two different ways of expressing breathing, one as if using a ventilator at the mouth and the other one as human pleural muscle generating pressure gradient against external pressure. Three models used to compare differences.
- Key terms: Airway, Pleural, External, Respiratory mechanics
- Pleural_vs_ExternalPress
A model of pulmonary circulation based on Olansen et al. (2000) and Lu et al. (2001). A model of pulmonary circulation in which a right ventricle input pressure pulse drives blood flow through vascular components.
- Key terms: Cardiovascular system, circulatory networks, pulmonary circulation, lumped parameter, Olansen, pulmonary arteries, pulmonary capillaries, pulmonary veins, pulmonary shunt, pulmonary blood flow
- Pulmonary_Circulation_Olansen_et_al_2000
This model is based on Lutchen et al. A nonlinear model combining pulmonary mechanics and gas concentration dynamics. IEEE Trans. Biomed. Eng. 29: 629-641, 1982
- Key terms: Pulmonary mechanics, Gas concentration, Alveolar compartment, Dead space, Lutchen, Respiratory System, Airway mechanics
- PulmonMech_andGasConc
Model simulates the diffusion of 11 cytosolic proteins from rabbit muscle fibers in a physiological solution. Several mechanisms which alter protein diffusion are considered including binding and hindrance to the myofilament lattice, binding to the other proteins, and protein crowding.
- Key terms: Radial diffusion, Glycolytic enzymes, Skinned muscle fiber, Steric hinrance, Protein crowding, Supramolecular complex, Myofilament lattice binding, Data, Transport physiology
- Radial_Diffusion_in_Muscle_Fiber
20,000 1-D random walks are taken, the summation of Gaussian distributed steps with mean of 0 and variance = 1 or uniformly distributed steps from -1 to 1. The positions at a specific step number are
- Key terms: Diffusion, Random walk, Stochastic, one dimension, 1-D, Transport Physiology
- RandomWalk1D
Model effect of erythrocyte membrane on exchange of solutes between erythrocytes (red blood cells) and plasma water.
- Key terms: indicator dilution, barrier-limited, liver, transport, vascular volume, organ, red blood cells, membrane, Goresky transport tutorial, tracer, Data, PDE
- redcell_carriage
This model describes the steady state regulatory vessel response to changes in pressure across and shear stress on the vessel wall.
- Key terms: Resistance vessel, Myogenic response, Shear-dependent response, Regulation, Active response, Passive response, Cardiovascular System, Blood flow, Autoregulation, Publication, PMID16020079, Data
- Regulatory_Vessel
This model represents four generations of the bipodial human lung. The lengths and diameter of the airways are based on the weibel model. The compliance of the airway was considered to be negligible to represent rigid airways.
- Key terms: Weibel Lung, Bi-Podial Branching airways, Human Lung, rigid, Respiratory system, Respiratory mechanics, airway mechanics
- Rigid_four_gen_weibel_lung
This model represents a bifurcating rigid bronchiole with two compliant alveoli.
- Key terms: Bifurcating bronchiole, Alveolus, Bronchiole, Compliant alveolus, Respiratory system, respiratory mechanics, airway
- Rigid_bifurcating_bronchiole_compliant_alveolus
Mechanics of a rigid resistive bronchiole with compliant alveolar sac. The driving pressure is at entrance to the bronchiole; the reference extrathoracic pressure is constant at zero.
- Key terms: Alveolus, Alveolar sac, lung mechanics, positive pressure ventilation, chest wall compliance, Respiratory System, Respiratory mechanics, airway
- Rigid_bronchiole_compliant_alveolus
The Sangren-Sheppard model (Bull Math Biophys 15: 387-394, 1953) for the exchange of a labeled substance between a liquid flowing in a vessel and an external compartment. Similar to BTEX20 with no diffusion
- Key terms: sanshe, btex20, two regions, blood tissue exchange, Sangren Sheppard, Publication, PDE, Transport Physiology, convection, diffusion
- Sanshe
Single and Multi-path models of diffusion of sucrose, sodium, and water across a sheet of ventricular myocardium. Suenson et al. 1974 paper. Variation on Crank, 1956, solution for diffusion in a plane sheet with constant surface concentrations.
- Key terms: tissue diffusion, cat ventricular myocardium, diffusion models, tracer washout, extracellular fluid, dead-end pores heterogeneous systems, solute transport, DATA, Publication, PMID4440753, PMCID:PMC3024886
- Suenson1974
Simple compartmental model including soluble gas transport in the alveoli, transfer between the bronchial circulation and the conducting airways, and metabolism.
- Key terms: solvent, water-soluble, partition coefficient, blood-soluble, compartment, pharmacokinetic, uptake, Publication, Respiratory system, Air-blood gas exchange, Data
- Kumagai_2000
A compliant 1 compartment lung with resistance to air flow can be driven by an external negative pressure surrrounding the chest (Pexhaust) or by intrapleural negative pressure (chest or diaphragmatic breathing (Pchest)) or a positive pressure ventilator (P or all three together).
- Key terms: lung compliance, resistance, RC circuit, lung mechanics, airflow in trachea, tidal volume, positive pressure ventilation, chest or diaphragmatic breathing, tutorial
- OneAlvLung.IronLung
A model for a physiological based description of the inhalation pharmacokinetics of styrene in rats and humans based on the work of J.C. Ramsey and M.E. Andersen [(1984). Toxicol Appl Pharm. 73(1), 159-175.], developed by Neil Geisler (2006) as a final project for BIOEN 589, University of Washington.
- Key terms: Administration, Oral, Animals, Gases, Humans, Injections, Intravenous, Kinetics, Liver metabolism, Lung metabolisim, Male, Models, Biological, Rats, Inbred Strains, Species Specificity, Styrene metabolism, Data, Respiratory system, Air-blood gas exchange, Publication
- Styrene_Inhalation
Surfactant effect on single bubble dynamics: This models the dynamic adsorption, desorption, and squeeze-out phenomena of surfactant
- Key terms: lung alveolus, surface tension, bubble dynamics, surfactant TA concentration, lung compliance, functional residual volume, pulmonary mechanics, intrapleural pressure, lung elasticity, Respiratory mechanics, Airway mecahnics
- Surfactant
Four region BTEX model used to describe serotonin uptake in the pulmonary endothelium and beyond. From Jardine et al. 2013 paper.
- Key terms: serotonin, endothelium, transport modeling, pulmonary capillary permeability, convection-diffusion, capillary-tissue exchange, hydroxy-tryptamine receptors, Data, PDE, reproducible, Publication, dog
- JardineSerotonin_FourRegion
Two Region BTEX Model describing serotonin uptake by lung tissue. From Jardine et al. 2013 paper based on model by Linehan et al, 1998.
- Key terms: serotonin, endothelium, transport modeling, pulmonary capillary permeability, convection-diffusion, capillary-tissue exchange, hydroxy-tryptamine receptors, Data, PDE, reproducible, Publication, dog
- JardineSerotonin_TwoRegion
Four and two region BTEX models without heterogeniety used to compare serotonin uptake in the pulmonary endothelium and beyond. From Jardine et al. 2013 paper.
- Key terms: serotonin, endothelium, transport modeling, pulmonary capillary permeability, convection-diffusion, capillary-tissue exchange, hydroxy-tryptamine receptors, Data, PDE, Publication
- JardineSerotonin_OnePathCompare