JSim Consolidated Model Database
Showing 201 - 250 of 433 models found. [New Search]
NSR0201 (in NSR archive): ten_Tusscher_Noble_Panfilov2004
This model simulates the action potential for a human ventricular myocyte accounting for Na, K and Ca transport and dynamics.
This model simulates the action potential for a human ventricular myocyte accounting for Na, K and Ca transport and dynamics.
- Key terms: Human, ventricular, myocyte, electrophysiology, Publication, Cell Physiology, Action potential, PMID14656705
- ten_Tusscher_Noble_Panfilov2004
NSR0202 (in NSR archive): Safford1977
Parallel pathway, dead-end pore model that accounts for sequestration or binding of calcium within heart muscle sheet. From Safford and Bassingthwaighte, 1977. Also contains an implementation of Suenson et al. 1974 diffusion model to validate new model with sucrose data.
Parallel pathway, dead-end pore model that accounts for sequestration or binding of calcium within heart muscle sheet. From Safford and Bassingthwaighte, 1977. Also contains an implementation of Suenson et al. 1974 diffusion model to validate new model with sucrose data.
- Key terms: tissue diffusion, plane sheet, binding, dead-end pore, ventricular myocardium, calcium, sucrose, tutorial, heterogeneous transport, Data, Publication, PMID901900, PMCID: PMC1473340
- Safford1977
NSR0203 (in NSR archive): Pawlowski2007
A theoretical model dealing with endocytosis, exocytosis and caveolae invagination, describing plasmalemma homeostasis during cell growth and division, was proposed. It considers transmembrane pressure, membrane tension and mechanosensitivity of membrane processes.
A theoretical model dealing with endocytosis, exocytosis and caveolae invagination, describing plasmalemma homeostasis during cell growth and division, was proposed. It considers transmembrane pressure, membrane tension and mechanosensitivity of membrane processes.
- Key terms: Cellular membrane, Plasmalemma, Homeostasis, Cell growth, Cell division, Mechanokinetics model, Surface tension, Mechanosensitivity, Lipid exchange, Membrane traffic, Membrane transport, Water permeability, Endocytosis, Exocytosis, Caveolae formation, Cell cycle, Cell shape changes, Mitosis, Publication
- Pawlowski2007
NSR0204 (in NSR archive): thick_wall_vessel_tangential_stress
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled, distensible, isotropic, cylindrical vessel.
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled, distensible, isotropic, cylindrical vessel.
- Key terms: cardiovascular system, thick wall, vessel, cylinder, tangential stress, hoop stress, circumferential stress, isotropic, strain, stress profile
- thick_wall_vessel_tangential_stress
NSR0205 (in NSR archive): Safford1978
Calculates the bulk diffusion coefficient, Db, for water through a matrix of cells surrounded by ECF, influenced by cell membrane permeability. This is contrasted with results obtained from homogeneous sheet and dead-end pore models. From Safford et al. 1978 paper.
Calculates the bulk diffusion coefficient, Db, for water through a matrix of cells surrounded by ECF, influenced by cell membrane permeability. This is contrasted with results obtained from homogeneous sheet and dead-end pore models. From Safford et al. 1978 paper.
- Key terms: Diffusion, barrer, sheet diffusion, dead-end pore, DEP, publication, data, water, sucrose, cell geometry, permeation, PMID722277
- Safford1978
NSR0206 (in NSR archive): OneAlvLung.ExchBody
Exchange of gas in external air into a non-linearly compliant lung with calculation of concentration of material in lung over a series of breaths and transport into the pulmonary capillary blood and subsequent loss into a "body" composed of blood in exchange with a tissue region where consumption occurs.
Exchange of gas in external air into a non-linearly compliant lung with calculation of concentration of material in lung over a series of breaths and transport into the pulmonary capillary blood and subsequent loss into a "body" composed of blood in exchange with a tissue region where consumption occurs.
- Key terms: lung, non-linear, compliance, resistance, RC circuit, mechanics, airflow, trachea, tidal volume, positive pressure, ventilation, tutorial
- OneAlvLung.ExchBody
NSR0207 (in NSR archive): ErupakaBruce2010
Circulating, multicompartment O2-CO uptake and Hb/Mb binding model based on Erupaka et al. 2010. All table and eq. references are to 2010 paper unless noted. Figures and data referenced here are from Erupaka et al. 2010 paper.
Circulating, multicompartment O2-CO uptake and Hb/Mb binding model based on Erupaka et al. 2010. All table and eq. references are to 2010 paper unless noted. Figures and data referenced here are from Erupaka et al. 2010 paper.
- Key terms: Oxygen, hemoglobin, carbon monoxide, dissociation curve, compartmental model, whole body, muscle, lung, alveolar, blood gas exchange, mass balance equations, data, Haldane, Hill equation, myoglobin, mixed venous, publication
- ErupakaBruce2010
NSR0208 (in NSR archive): LungBtexCO2exch
Distributed model for O2-CO2 transport and exchange between a three compartment lung and the pulmonary circulation, modeled as a blood tissue exchange (BTEX) unit.
Distributed model for O2-CO2 transport and exchange between a three compartment lung and the pulmonary circulation, modeled as a blood tissue exchange (BTEX) unit.
- Key terms: oxygen, carbon dioxide, gas exchange, alveoli, btex, three region, lung, pulmonary circulation, red blood cells, PDE, Respiratory system, air-blood gas exchange, alveolar exchange, Tutorial
- LungBtexCO2exch
NSR0209 (in NSR archive): Tidal_Human
A single chamber model of the lung pressure and volume with airway resistance and lung compliance.
A single chamber model of the lung pressure and volume with airway resistance and lung compliance.
- 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, Respiratory System
- Tidal_Human
NSR0210 (in NSR archive): 4-State_Sarcomere_inSeries
A two element model incorporating two 4-state sarcomeres in series. This model is based on the 4 state model of a cardiac sarcomere originally developed by Landesberg and Sideman (Am J Physiol 267:H779-H795, 1994) and has been further developed to describe two sarcomeres.
A two element model incorporating two 4-state sarcomeres in series. This model is based on the 4 state model of a cardiac sarcomere originally developed by Landesberg and Sideman (Am J Physiol 267:H779-H795, 1994) and has been further developed to describe two sarcomeres.
- Key terms: Crossbridge, Cardiac Muscle, Sarcomere, Excitation-Contraction Coupling, Cardiovascular System, Cardiac contraction, Two 4-State Sarcomeres in Series
- 4-State_Sarcomere_inSeries
NSR0211 (in NSR archive): Two-barrier model
Two-barrier Model. If a tracer is transformed within the cells, or if its distribution is heterogeneous, two intracellular regions have to be considered, with a second barrier between them.
Two-barrier Model. If a tracer is transformed within the cells, or if its distribution is heterogeneous, two intracellular regions have to be considered, with a second barrier between them.
- Key terms: indicator dilution, barrier-limited, liver, transport, vascular volume, organ, Goresky transport tutorial, Data, PDE
- Two-barrier model
NSR0214 (in NSR archive): Ventilation_Response_to_CO
A mathematical model of ventilation response to inhaled carbon monoxide, based on the work of James H. Stuhmiller and Louise M. Stuhmiller [2005, JAP, 98, 2033-2044] and developed by Raymond Yakura as a final project for BIOEN 589, University of Washington.
A mathematical model of ventilation response to inhaled carbon monoxide, based on the work of James H. Stuhmiller and Louise M. Stuhmiller [2005, JAP, 98, 2033-2044] and developed by Raymond Yakura as a final project for BIOEN 589, University of Washington.
- Key terms: ventilation, response, carbon monoxide, hyperventilation, respiration, brain activity, blood chemistry, circulation, cardiac output, metabolism, Publication, Respiratory System, Breathing control
- Ventilation_Response_to_CO
NSR0215 (in NSR archive): Ventricle_three_vessel_loop
This model simulates a closed loop resistor-capacitor network driven by a pressure generator (Pv). Volumes flow through a varying-elastance pressure generator component (simulating a contracting ventricle) and three compliant vessels in series.
This model simulates a closed loop resistor-capacitor network driven by a pressure generator (Pv). Volumes flow through a varying-elastance pressure generator component (simulating a contracting ventricle) and three compliant vessels in series.
- Key terms: RC Closed Loop Model, Varying Elastance, Ventricle, Resistance, Capacitance, Pressure, Flow, Circ3seg, Cardiovascular System, Hemodynamics, Tutorial
- Ventricle_three_vessel_loop
NSR0216 (in NSR archive): Weight_Cycling
A model for the dynamics of human weight cycling based on the work of Albert Goldbeter [J. Biosci, 31, 129-136] and presented by Lauren Shepherd as a final project for BIOEN 589, University of Washington.
A model for the dynamics of human weight cycling based on the work of Albert Goldbeter [J. Biosci, 31, 129-136] and presented by Lauren Shepherd as a final project for BIOEN 589, University of Washington.
- Key terms: oscillations, rhythms, weight cycling, Publication, Systems behavior, Control systems
- Weight_Cycling
NSR0217 (in NSR archive): Winslow_Rice_Jafri1999
This model analyzes the influence of voltage-dependent calcium (Ca2+)-independent transient current (Ito1) on the action potential duration (APD) in normal vs failing canine and human cardiac myocytes.
This model analyzes the influence of voltage-dependent calcium (Ca2+)-independent transient current (Ito1) on the action potential duration (APD) in normal vs failing canine and human cardiac myocytes.
- Key terms: cardiac action potential, Publication, Cell Physiology, PMID10082479
- Winslow_Rice_Jafri1999
NSR0219 (in NSR archive): Stergiopulos_4_Element_Windkessel
Lumped parameter peripheral circulation model from Stergiopulos et al. (1999) Am J Physiol 276: H81-H88.
Lumped parameter peripheral circulation model from Stergiopulos et al. (1999) Am J Physiol 276: H81-H88.
- Key terms: stergiopulos, 4, element, windkessel, lumped parameters, peripheral, circulation, Publication, Data, PMID9887020
- Stergiopulos_4_Element_Windkessel
NSR0220 (in NSR archive): Thick_Wall_Vessel_Tangential_Stress
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled, distensible, isotropic, cylindrical vessel.
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled, distensible, isotropic, cylindrical vessel.
- Key terms: thick, wall, vessel, tangential, stress, pressure, compliance, resistance, PDE
- Thick_Wall_Vessel_Tangential_Stress
NSR0221 (in NSR archive): Thick_Wall_Cylinder_Variable_E
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled,
This model simulates the pressure and geometry resulting from changes in the internal radius of a thick-walled,
- Key terms: Thick, Variable, Young's modulus, vessel wall, material properties, thick wall, pressure-radius curve, pressure-volume curve, pressure-area curve, Data, Publication
- Thick_Wall_Cylinder_Variable_E
NSR0222 (in NSR archive): Ventricle_Driven_Two_Vessel
This model simulates a closed loop resistor-capacitor circulatory network driven by a pressure generator (PV).
This model simulates a closed loop resistor-capacitor circulatory network driven by a pressure generator (PV).
- Key terms: Ventricle, Driven, Two, Vessel, Loop, resistor-capacitor, pressure, flow, Circ2Seg, Tutorial, Cardiovascular system
- Ventricle_Driven_Two_Vessel
NSR0224 (in NSR archive): Systemic_Circulation_Olansen_et_al_2000
A lumped-parameter model of the systemic circulation. A chopped-sine left ventricle pressure signal drives flow through the system.
A lumped-parameter model of the systemic circulation. A chopped-sine left ventricle pressure signal drives flow through the system.
- Key terms: Systemic circulation, cardiovascular system, Aorta, arteries, arterioles, capillaries, veins, Vena cava, cerebral circulation, coronary circulation, Publication
- Systemic_Circulation_Olansen_et_al_2000
NSR0225 (in NSR archive): BTEX20_Augmented
Models a tissue cylinder consisting of two regions: plasma and interstitial fluid. Model augmented with additional calculations.
Models a tissue cylinder consisting of two regions: plasma and interstitial fluid. Model augmented with additional calculations.
- Key terms: BTEX20, PDE, convection, diffusion, permeation, reaction, distributed, capillary, plasma, isf, interstitial fluid, terminology, statistics, area, transit time, skewness, Tutorial, kurtosis, relative dispersion, RD, Comp2, compartmental, Java, procedure, visual interface
- BTEX20_Augmented
NSR0226 (in NSR archive): Vinnakota_Kemp_2006
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics
- Key terms: Muscle Glycogenolysis, Enzyme Kinetics, pH-Dependent, creatine kinase, cellular metabolites, metabolic network, skeletal muscle, adenylate kinase, lactate, PCr, Publication, Data
- Vinnakota_Kemp_2006
NSR0227 (in NSR archive): Vinnakota_Kemp_2006_Figs1_2
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Reproduce figures 1 and 2.
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Reproduce figures 1 and 2.
- Key terms: Muscle Glycogenolysis, Enzyme Kinetics, pH-Dependent, creatine kinase, cellular metabolites, metabolic network, skeletal muscle, adenylate kinase, lactate, PCr, Publication, Data
- Vinnakota_Kemp_2006_Figs1_2
NSR0228 (in NSR archive): Vinnakota_Kemp_2006_Figs12_13
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Scopes 1974 postmortem data.
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Scopes 1974 postmortem data.
- Key terms: Muscle Glycogenolysis, Enzyme Kinetics, pH-Dependent, creatine kinase, cellular metabolites, metabolic network, skeletal muscle, adenylate kinase, lactate, PCr, Publication
- Vinnakota_Kemp_2006_Figs12_13
NSR0229 (in NSR archive): Vinnakota_Kemp_2006_Fig15
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Reproduce Fig 15.
Dynamics of Muscle Glycogenolysis Modeled with pH Time-Course Computation and pH Dependent Reaction Equilibria and Enzyme Kinetics. Reproduce Fig 15.
- Key terms: Muscle Glycogenolysis, Enzyme Kinetics, pH-Dependent, creatine kinase, cellular metabolites, metabolic network, skeletal muscle, adenylate kinase, lactate, PCr, Publication, Data
- Vinnakota_Kemp_2006_Fig15
NSR0235 (in NSR archive): HbCO
Binding kinetics of carbon monoxide to hemoglobin using Adair's four site model. Two-way binding for carbon monoxide and no interactions between binding sites.
Binding kinetics of carbon monoxide to hemoglobin using Adair's four site model. Two-way binding for carbon monoxide and no interactions between binding sites.
- Key terms: Binding kinetics, Hemoglobin, Carbon Monoxide, HbCO, Adair, saturation, blood gases, cooperativity, oxygen, Data, Tutorial
- HbCO
NSR0238 (in NSR archive): shbo2_adair
Adair's hemoglobin-oxygen dissociation equation expressed in terms of P50 for sheep blood. Compare to two other variations of Adair's equation.
Adair's hemoglobin-oxygen dissociation equation expressed in terms of P50 for sheep blood. Compare to two other variations of Adair's equation.
- Key terms: hemoglobin, oxygen, dissociation curve, saturation, Haldane, blood gases, Hill equation, Adair, cooperativity, Data, p50
- shbo2_adair
NSR0239 (in NSR archive): HbO.WCM2state
The Monod-Wyman-Changeux model is used to describe the saturation of hemoglobin with oxygen. Accounts for homotropic cooperative effects on each of the four binding sites.
The Monod-Wyman-Changeux model is used to describe the saturation of hemoglobin with oxygen. Accounts for homotropic cooperative effects on each of the four binding sites.
- Key terms: hemoglobin, oxygen, binding, cooperative binding, MWC, Monod-Wyman-Changeux, saturation curve, allosteric protein, Tutorial, Data, Publication
- HbO.WCM2state
NSR0242 (in NSR archive): Comp1FlowDecay
Models single compartment with inflowing and outflowing concentration of a single substance which undergoes decay. Does not use physiological units.
Models single compartment with inflowing and outflowing concentration of a single substance which undergoes decay. Does not use physiological units.
- Key terms: Course, compartment, Compartmental, tutorial, flow, decay, clearance, Comp1FlowDecay
- Comp1FlowDecay
NSR0244 (in NSR archive): Comp1FlowDecayPhysiologicalVersion
Models single compartment with inflowing and outflowing concentration of a single substance which undergoes decay.
Models single compartment with inflowing and outflowing concentration of a single substance which undergoes decay.
- Key terms: Course, compartment, compartmental, tutorial, flow, decay, clearance, Comp1FlowDecay, Comp1FlowDecayPlus, Comp1FlowDecayPhysiologicalVersion
- Comp1FlowDecayPhysiologicalVersion
NSR0247 (in NSR archive): Comp2FlowExchange
Two compartments, plasma and interstitial fluid (ISF), with flow and exchange using physiological names and units for parameters and variables. The model is
Two compartments, plasma and interstitial fluid (ISF), with flow and exchange using physiological names and units for parameters and variables. The model is
- Key terms: Course, compartment, compartmental, tutorial, flow, exchange, multi-compartments, two compartments, data
- Comp2FlowExchange
NSR0248 (in NSR archive): Comp2FlowExchangeReaction
Model with two species A and B, with flow in a plasma compartment and exchange with an interstitial fluid compartment with A converting to B reversibly.
Model with two species A and B, with flow in a plasma compartment and exchange with an interstitial fluid compartment with A converting to B reversibly.
- Key terms: Course, compartment, compartmental, tutorial, exchange, multiple compartments, flux, steady state, reaction, conversion, flow, implicit equations
- Comp2FlowExchangeReaction
NSR0249 (in NSR archive): Comp2FlowMMExchangeReaction
Two compartment model with flow, Michaelis-Menten type exchanger, and a reversible reaction in non-flowing compartment converting C to B.
Two compartment model with flow, Michaelis-Menten type exchanger, and a reversible reaction in non-flowing compartment converting C to B.
- Key terms: Course, compartment, compartmental, tutorial, exchange, multiple compartments, flux, steady state, reaction, conversion, flow, plasma, parenchymal cell, Michaelis-Menten, transporter
- Comp2FlowMMExchangeReaction