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NSR Physiome course: August 23-28, 2009, University of Washington

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JSim CellML Models Page

This page allows users to run models from the CellML model archive 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 CellML models do not specify simulation time length or delta, these must be set by the user before running the model.

Users are strongly advised to read Running CellML Models under JSim before running CellML models under JSim. The warning icon indicates that a unit conversion has been turned off because the model does not satisfy JSim unit balance.

Terms of use

Currently available models

adrian_chandler_hodgkin_1970
Voltage Clamp Experiments in Striated Muscle Fibres

albrecht_colegrove_friel_2002
Differential Regulation of ER Ca2+ Uptake and Release Rates Accounts for Multiple Modes of Ca2+-induced Ca2+ Release

albrecht_colegrove_hongpaisan_pivovarova_andrews_friel_2001
Multiple Modes of Calcium-induced Calcium Release in Sympathetic Neurons

aon_cortassa_2002
Modulation of a Metabolic Network by Cytoskeletal Organisation and Dynamics

asthagiri_lauffenburger_2001
Feedback Effects On Signal Dynamics In A Mitogen-Activated Protein Kinase (MAPK) Cascade

bakker_mensonides_teusink_vanhoek_michels_westerhoff_2000
Glycosomes Protect Trypanosomes from Glycolysis

bakker_michels_opperdoes_westerhoff_1997
Modelling Glycolysis in Trypanosoma brucei, Bakker et al, 1997

baylor_hollingworth_chandler_2002
Calcium Sparks in Skeletal Muscle Fibers

beard_2005
A Biophysical Model of the Mitochondrial Respiratory System and Oxidative Phosphorylation, Beard, 2005

beeler_reuter_1977
Beeler-Reuter Mammalian Ventricular Model 1977

bental_2006
Simplified Models For Gas Exchange In The Human Lungs

bernus_wilders_zemlin_verschelde_panfilov_2002
A Computationally Efficient Electrophysiological Model of Human Ventricular Cells

bertram_arnot_zamponi_2002
G-Protein Specificity In Synaptic Signalling

bertram_previte_sherman_kinard_satin_2000
The Phantom Burster Model For Pancreatic Beta-Cells

bertram_satin_pedersen_luciani_sherman_2007
Interaction of glycolysis and mitochondrial respiration in metabolic oscillations of pancreatic islets

bertram_satin_zhang_smolen_sherman_2004
Modelling Multiple Bursting Models in Pancreatic Islets

bertram_sherman_2004
A Calcium-based Phantom Bursting Model for Pancreatic Islets

bertram_smolen_sherman_mears_atwater_martin_soria_1995
Modulatory Role for CRAC in Pancreatic Beta-Cell Electrical Activity

bhalla_iyengar_1999
The Phospholipase 2A (PLA2) Pathway Model from Bhalla and Iyengar

bindschadler_sneyd_2001
A Bifurcation Analysis of Two Coupled Calcium Oscillators

bingzheng_zhenye_liansong_1990
A mathematical model of the regulation system of the secretion of glucocorticoids

bondarenko_szigeti_bett_kim_rasmusson_2004
Modelling the Action Potential of Mouse Ventricular Myocytes

bonhoeffer_rembiszewski_ortiz_nixon_2000
Modelling the Population Dynamics of Virus Infected Cells

boyett_zhang_garny_holden_2001
Modelling The Effect Of Intracellular Ca2+ On Sinoatrial Node Action Potentials, 2001

brown_choe_shanahan_czeisler_1997
A mathematical model of diurnal variations in human plasma melatonin levels

bueno_2007
Model Status

butera_rinzel_smith_1999
Models Of Respiratory Rhythm Generation In The Pre-Botzinger Complex. I. Bursting Pacemaker Neurons

campbell_chandra_2006
Function of Stretch Activation in Heart Muscle

cartwright_husain_1986
A model for the control of testosterone secretion

chang_fujita_1999
A Kinetic Model of the Thiazide-Sensitive Na-Cl Cotransporter

chang_fujita_2001
Mathematical Models of Ionic Transport in the Distal Tubule of the Rat

chassagnole_rais_quentin_fell_mazat_2001
The Threonine-Synthesis Pathway In Escherichia coli

chay_1997
Extracellular And Intracellular Calcium Effects On Pancreatic Beta-Cells

chay_lee_fan_1995
Intracellular Ca2+ Spikes in Non-excitable Cell Models

chen_calzone_csikasznagy_cross_novak_tyson_2004
An Integrative Analysis of Cell Cycle Control in Budding Yeast

chen_csikasz-nagy_gyorffy_val_novak_tyson_2000
Modelling the Budding Yeast Cell Cycle

chen_popel_2006
Theoretical analysis of biochemical pathways of nitric oxide release from vascular endothelial cells

chen_popel_2007
Vascular and perivascular nitric oxide release and transport: biochemical pathways of neuronal nitric oxide synthase (NOS1) and endothelial nitric oxide synthase (NOS3)

cheng_brown_loeb_2000
Virtual muscle: a computational approach to understanding the effects of muscle properties on motor control

ciliberto_novak_tyson_2003
Modelling the Morphogenesis Checkpoint in the Budding Yeast Cell Cycle

ciliberto_petrus_tyson_sible_2003
A Kinetic Model of the Cyclin E/Cdk2 Developmental Timer in Xenopus laevis embryos

ciliberto_tyson_2000
Mathematical Model for the Early Development of the Sea Urchin Embryo

clancy_rudy_2001
Clancy-Rudy Markovian Model of Ion Channels 2001

clancy_rudy_2002
A Single Mutation Underlies Brugada and LQT

colegrove_albrecht_friel_2000
Quantitative Analysis Of Mitochondrial Ca2+ Uptake And Release Pathways In Sympathetic Neurons

cooling_hunter_crampin_2007
Modelling Hypertrophic IP3 Transients in the Cardiac Myocyte

cooling_hunter_crampin_CAN_2008
Calcineurin Regulation: Insights from Kinetic Modelling

cooling_hunter_crampin_CellML_2008
NFAT Cycling Calcium Sensitivity: A Quantitative Myocyte Model

cooling_hunter_crampin_NFAT_2008
NFAT Cycling Calcium Sensitivity: A Quantitative Myocyte Model

corrias_buist_2007
A quantitative model of gastric smooth muscle cellular activation

corrias_buist_2008

cortassa_aon_marban_winslow_orourke_2003
Modelling Mitochondrial Energy Metabolism

cortassa_aon_winslow_orourke_2004
Modelling Mitochondrial Energy Metabolism

costa_holmes_mcculloch_2001
The Guccione Constitutive Material Law

courtemanche_ramirez_nattel_1998
Mathematical Model Of A Human Atrial Action Potential, 1998

cronwright_rohwer_prior_2002
Metabolic Control Analysis of Glycerol Synthesis in Saccharomyces cerevisiae

cui_kaandorp_2006
Mathematical modelling of calcium homeostasis in yeast cells

cui_kaandorp_2008

curien_ravanel_dumas_2003
A Kinetic Model of the Branch-Point between the Methionine and Threonine Biosynthesis Pathways in Arabidopsis thaliana

dash_bassingthwaighte_2004
Blood HbO2 and HbCO2 Dissociation Curves at Varies O2, CO2, pH, 2,3-DPG and Temperature Levels

dawson_lea_irvine_2003
Kinetic Model of the Inositol Trisphosphate Receptor

demir_clark_giles_1999
A Model Of Parasympathetic Modulation Of Pacemaker Rate, 1999

demir_clark_giles_murphey_1994
A Mathematical Model Of A Rabbit Sinoatrial Node Cell, 1994

demiray_1981
Exponential Constitutive Material Law

dempsher_gann_phair_1984
A mechanistic model of ACTH-stimulated cortisol secretion

depaor_timmons_1986
A feedback oscillator model for circulatory autoregulation

devries_sherman_2000
Enhancement Of Emergent Bursting In Pancreatic Beta-Cells

devries_sherman_2001
From Spikers To Bursters Via Heterogeneity

deyoung_keizer_1992
IP3-Mediated Ca2+ Release

difrancesco_noble_1985
Di Francesco-Noble Purkinje Fibre Model 1985

dixit_perelson_2004
Modelling the Complex Patterns of Viral Load Decay under Antiretroviral Therapy

dokos_celler_lovell_1996
A Single Cell Mathematical Model of the Ion Currents Underlying Sinoatrial Node Pacemaker Activity

dougherty_wright_yew_2005
Computational model of the cAMP-mediated sensory response and calcium-dependent adaptation in vertebrate olfactory receptor neurons

drouhard_roberge_1987
The Drouhard-Roberge Sodium Current Model (1987)

dumaine_towbin_brugada_vatta_nesterenko_nesterenko_brugada_brugada_antzelevitch_1999
Modelling the Ionic Mechanisms Underlying Brugada Syndrome

earm_noble_1990
Model Status

ebihara_johnson_1980
The Ebihara-Johnson Sodium Current Model (1980)

egli_bertram_sellix_freeman_2004
Rhythmic secretion of prolactin in rats: action of oxytocin coordinated by vasoactive intestinal polypeptide of suprachiasmatic nucleus origin

enciso_sontag_2004
On the stability of a model of testosterone dynamics

endresen_1996
Mathematical modeling and qualitative analysis of insulin therapies

espinosa_1998
Espinosa Model - healthy version

evans_errington_shelly_feeney_chapman_godfrey_smith_chappell_2004
Modelling The In Vitro Kinetics Of The Anti-Cancer Agent Topotecan

faber_rudy_2000
Updated Luo-Rudy Mammalian Ventricular Model II

fall_keizer_2001
Mitochondria And Ca2+ Signalling

fallon_lauffenburger_2000
Binding, Internalisation and Postendocytotic Sorting of Interleukin-2 and Its Receptor

farhy_bowers_veldhuis_2007
Modelling Growth Hormone Regulation in Humans

faville_pullan_sanders_smith_2008
A Biophysically Based Mathematical Model of Unitary Potential Activity in Interstitial Cells of Cajal

fenton_karma_1998
A Simplified Ventricular Myocyte Model

fenton_karma_2006

fink_slepchenko_loew_1999
Intracellular IP3 and Calcium Release in a Smooth Muscle Cell

fink_slepchenko_moraru_watras_schaff_loew_2000
Calcium Waves in Differentiated Neuroblastoma Cells

fitzhugh_1961
The FitzHugh-Nagumo Simplified Cardiac Myocyte Model

flynn_green_pedley_boxer_dearling_watson_boden_begent_2002
A Model-Based Approach for Assessing the Efficacy of Radioimmunotherapy

fohlmeister_miller_1997
Modelling the Impulse Encoding Mechanisms of Ganglion Cells in the Tiger Salamander Retina

fox_mcharg_gilmour_2002
Ionic mechanism of electrical alternans

fridlyand_tamarina_philipson_2003
Modelling Ca2+ Flux in Pancreatic Beta-cells

friel_1995
[Ca2+]i Oscillations in Sympathetic Neurons

gall_susa_1999
Na/Ca Exchange in Models for Pancreatic Beta-Cells

gardner_dolnik_collins_1998
Controlling Cell Cycle Dynamics Using a Reversibly Binding Inhibitor

garny_kohl_hunter_boyett_noble_2003
Mathematical Model Of Action Potentials In The Periphery Of The Sinoatrial Node, 2000

gasser_ogden_holzapfel_2006
Fibre Dispersion Law

gilbert_heiner_rosser_fulton_gu_trybilo_2008
Electroblue, 2007

goforth_bertram_khan_zhang_sherman_satin_2002
Calcium-activated K+ Channels in Pancreatic Beta-Cells

goldbeter_1991
A Minimal Cascade Model for the Mitotic Oscillator Involving Cyclin and cdc2 Kinase

goldbeter_1995
A Model For Circadian PER Oscillations In Drosophila

goldbeter_pourquie_2008
Model Status

gonzalezheydrich_steingard_kohane_1994
A computer simulation of the hypothalamic-pituitary-adrenal axis

goodwin_1965
Model Status

greenstein_wu_po_tomaselli_winslow_2000
Role of Ito1 in Shaping Action Potential Morphology and Duration

grossman_feinberg_kuznetsov_dimitrov_paul_1998
Modelling the Kinetics of Plasma Virus Following the Initiation of Therapy

guccione_mcculloch_waldman_1991
The Guccione Constitutive Material Law

gupta_aslakson_gurbaxani_vernon_2007
A Hypothalamic Pituitary Adrenal Axis Model

guyton_aldosterone_2008
Guyton Model: Aldosterone

guyton_angiotensin_2008
Guyton Model: Angiotensin

guyton_antidiuretic_hormone_2008
Guyton Model: Antidiuretic Hormone

guyton_atrial_natriuretic_peptide_2008
Guyton Model: Atrial Natriuretic Peptide

guyton_autonomics_2008
Guyton Model: Autonomics

guyton_capillary_dynamics_2008
Guyton Model: Capillary Dynamics

guyton_circulatory_dynamics_2008
Guyton Model: Circulatory Dynamics

guyton_electrolytes_2008
Guyton Model: Electrolytes

guyton_heart_hypertrophy_or_deterioration_2008
Guyton Model: Heart Hypertrophy or Deterioration

guyton_heart_rate_and_stroke_volume_2008
Guyton Model: Heart Rate and Stroke Volume

guyton_kidney_2008
Guyton Model: Kidney

guyton_muscle_blood_flow_control_2008
Guyton Model: muscle_autoregulatory_local_blood_flow_control

guyton_muscle_oxygen_delivery_2008
Guyton Model: muscle_O2_delivery

guyton_non_muscle_blood_flow_control_2008
Guyton Model: non_muscle_autoregulatory_local_blood_flow_control

guyton_non_muscle_oxygen_delivery_2008
Guyton Model: non_muscle_O2_delivery

guyton_pulmonary_fluid_dynamics_2008
Guyton Model: pulmonary_fluid_dynamics

guyton_pulmonary_oxygen_uptake_2008
Guyton Model: pulmonary_O2_uptake

guyton_red_cells_and_viscosity_2008
Guyton Model: red_cells_and_viscosity

guyton_stress_relaxation_2008
Guyton Model: stress_relaxation

guyton_thirst_drinking_and_salt_appetite_2008
Guyton Model: thirst_drinking_and_salt_appetite

guyton_volume_receptors_2008
Guyton Model: volume_receptors

halloy_bernard_loussouarn_goldbeter_2002
The Follicular Automaton Model for Hair Cycles

hatakeyama_kimura_naka_kawasaki_yumoto_ichikawa_kim_saito_saeki_shirouzu_yokoyama_konagaya_2003
A computational model on the modulation of mitogen-activated protein kinase (MAPK) and Akt pathways in heregulin-induced ErbB signalling

hatzimanikatis_lee_bailey_1999
Regulation of the G1-S Transition of the Mammalian Cell Cycle

haugh_2004
Mathematical model of human growth hormone (hGH)-stimulated cell proliferation explains the efficacy of hGH variants as receptor agonists or antagonists

heinze_keener_midgley_1998
A mathematical model of luteinizing hormone release from ovine pituitary cells in perifusion

herz_bonhoeffer_anderson_may_nowak_1996
Modelling Viral Dynamics In Vivo

heyd_drew_2003
A Mathematical Model for the Elongation of a Peptide Chain

hilgemann_noble_1987
Hilemann-Noble Atrial Cell Model 1987

hinch_greenstein_tanskanen_xu_winslow_2004
Model Status

hodgkin_huxley_1952
Hodgkin Huxley Squid Axon Model 1952

hoefnagel_starrenburg_martens_hugenholtz_kleerebezem_vanswam_bongers_westerhoff_snoep_2002
Metabolic Engineering of Lactococcus lactis

hornberg_binder_bruggeman_schoeberl_heinrich_westerhoff_2005
Modelling insulin kinetics in response to oral glucose administration

huang_ferrell_1996
The Mitogen-Activated Protein Kinase (MAPK) Cascade

hund_rudy_2004
Model Status

hunter_mcculloch_terkeurs_1998
The Mechanical Properties of Cardiac Muscle, 1998

hunter_mcnaughton_noble_1975
The Polynomial Model

hunter_smaill_hunter_1995
The Pole-Zero Constitutive Material Law

hynne_dano_sorensen_2001
Full-scale model of glycolysis in Saccharomyces cerevisiae

iber_maini_2002
A Mathematical Model for Germinal Centre Kinetics and Affinity Maturation

international_si_units_2006
Model Structure

iribe_kohl_noble_2006
Model Status

irvine_jafri_winslow_1999
Cardiac Sodium Channel Markov Model with Temperature Dependence and Recovery from Inactivation

itskov_ehret_mavrilas_2006
Exponential Polyconvex Anisotropic Strain-Energy Function

iyer_mazhari_winslow_2004
A Computational Model of the Human Left-Ventricular Epicardial Myocyte

izakov_katsnelson_blyakhman_markhasin_shkylar_1991
Cooperative Effects Due to Calcium Binding by Troponin and Their Consequences for Contraction and Relaxation of Cardiac Muscle Under Various Conditions of Mechanical Loading

jafri_rice_winslow_1998
Jafri-Rice-Winslow Ventricular Model 1998

jelic_cupic_kolaranic_2005
A Hypothalamic-Pituitary-Adrenal System Model

joseph_zavros_merchant_kirschner_2003
Modelling Human Gastric Acid Secretion

karagiannis_popel_2004
A theoretical model of type I collagen proteolysis by matrix metalloproteinase (MMP) 2 and membrane type 1 MMP in the presence of tissue inhibitor of metalloproteinase 2

karagiannis_popel_2006
Distinct modes of collagen type I proteolysis by matrix metalloproteinase (MMP) 2 and membrane type I MMP during the migration of a tip endothelial cell: insights from a computational model

katsnelson_nikitina_chemla_solovyova_coirault_lecarpentier_markhasin_2004
Influence of viscosity on myocardium mechanical activity: a mathematical model

keener_2001
Diffusion Induced Oscillatory Insulin Secretion

keizer_levine_1996
RyR Adaptation and Ca2+ Oscillations

kesmir_deboer_1999
Modelling the Kinetics of Germinal Centre Reactions

kholodenko_demin_moehren_hoek_1999
Quantification of EGF Receptor Signalling

kirschner_panetta_1998
Modelling Immunotherapy of the Tumour-Immune Interaction

kirschner_webb_1996
A Model for Treatment Strategy in the Chemotherapy of AIDS

kneller_ramirez_chartier_courtemanche_nattel_2002
Mathematical Model of a Canine Atrial Action Potential, 2002

komarova_wodarz_2003
Modelling the Evolutionary Dynamics of Mutator Phenotypes in Cancer

korzeniewski_zoladz_2001
Oxidative Phosphorylation

kroll_2000
Parathyroid hormone temporal effects on bone formation and resorption

kurata_hisatome_imanishi_shibamoto_2002
Improved Mathematical Model for the Primary Pacemaker Cell

kyrylov_severyanova_vieira_2005
Modeling robust oscillatory behavior of the hypothalamic-pituitary-adrenal axis

lambeth_kushmerick_2002
Modelling Glycogenolysis in Skeletal Muscle

landesberg_sideman_1994
Mechanical regulation of cardiac muscle by coupling calcium kinetics with cross-bridge cycling: a dynamic model

lebeau_robson_mckinnon_donald_sneyd_1997
A Mathematical Model of the Generation of Action Potentials in Corticotrophs

lebeau_yule_groblewski_sneyd_1999
Agonist-Dependent Phosphorylation Of The Inositol 1,4,5-Triphosphate Receptor

leloup_goldbeter_2003
A Detailed Computational Model for the Mammalian Circadian Clock

leloup_goldbeter_2004
Modeling the mammalian circadian clock: sensitivity analysis and multiplicity of oscillatory mechanisms

leloup_gonze_goldbeter_1999
Limit Cycle Model for Circadian Rhythms in Drosophila and Neurospora

lemaire_tobin_greller_cho_suva_2004
Modeling the interactions between osteoblast and osteoclast activities in bone remodeling

lenbury_pacheenburawana_1991
Modelling insulin kinetics in response to oral glucose administration

lenbury_pornsawad_2005
A delay-differential equation model of the feedback-controlled hypothalamus-pituitary-adrenal axis in humans

lenbury_ruktamatakul_amornsamarnkul_2001
Modelling insulin kinetics in response to oral glucose administration

li_kuang_mason_2006
Modelling the glucose-insulin regulatory system and ultradian insulin secretory oscillations

li_rinzel_1994
IP3-Mediated Ca2+ Oscillations - A Simplified Model

lindblad_murphey_clark_giles_1996
Model Status

liu_hu_peng_liu_1999
Mathematical modeling and qualitative analysis of insulin therapies

livshitz_rudy_2007
Regulation of Ca2+ and electrical alternans in cardiac myocytes: role of CAMKII and repolarizing currents

lovell_cloherty_celler_dokos_2004
A Gradient Model Of Cardiac Pacemaker Myocytes

luo_rudy_1991
Luo-Rudy Mammalian Ventricular Model I 1991

luo_rudy_1994
Luo-Rudy Mammalian Ventricular Model II (dynamic), 1994

macgregor_leng_2005
Modelling the Hypothalamic Control of Growth Hormone Secretion

magnus_keizer_1997
Mitochondrial Ca2+ Handling

magnus_keizer_1998
A Model Of Beta-Cell Mitochondrial Calcium Handling And Electrical Activity

mahajan_shiferaw_sato_baher_olcese_xie_yang_chen_restrepo_karma_garfinkel_qu_weiss_2008
Model Status

maly_wiley_lauffenburger_2004
A Computational Model Analysis of the Self-Organisation of Polarised Cell Signalling via Autocrine Circuits

margaridamartins_mendes_coreiro_pocesfreire_2001
Glyoxalase Pathway Model from Martins et al 2001

marhl_haberichter_brumen_heinrich_2000
Complex Calcium Oscillations and the Role of Mitochondria and Cytosolic Proteins

marhl_schuster_brumen_heinrich_1997
Modelling the Interellations Between Calcium Oscillations and ER Membrane Potential Oscillations

martinov_vitvitsky_mosharov_banerjee_ataullakhanov_2000
A Substrate Switch: A New Mode of Regulation in the Methionine Metabolic Pathway

marwan_2003
Kinetic Model for the Sensory Control of Sporulation in Physarum polycephalum

matsuoka_sarai_kuratomi_ono_noma_2003
Modelling the Roles of Individual Current Systems in Ventricular Cells and in the SA Node

mazhari_greenstein_winslow_marban_nuss_2001
Modelling HERG-KCNE2 Functional Interaction

mcallister_noble_tsien_1975
McAllister-Noble-Tsien Purkinje Fibre Model 1975

mckenzie_sneyd_1998
Modelling the Formation and Breakup of Spiral Waves of Calcium

michailova_mcculloch_2001
Modelling ATP and ADP Buffering, Ca2+ and Mg2+ Transport, and Ion Pump Regulation in Ventricular Myocytes

miftakhov_abdusheva_christensen_1999
Motility Patterns of the Small Bowel

mijailovich_butler_fredburg_2000
Modelling Actin-Myosin Binding in Airway Smooth Muscle

mikane_araki_kohno_nakayama_suzuki_shimuzi_matsubara_hirakawa_takaki_suga_1997
Mechanism of constant contractile efficiency under cooling inotropy of myocardium: simulationy

mittler_sulzer_neumann_perelson_1998
Influence of Delayed Viral Production on Viral Dynamics in HIV-1 Infected Patients

mlcek_neumann_kittnar_novak_2001
Mathematical Model of the Electromechanical Heart Contractile System

mohr_taylor_newell_2008
Model Structure

moore_li_2004
A Mathematical Model for Chronic Myelogenous Leukemia and T Cell Interaction

mosekilde_lading_yanchuk_maistrenko_2001
Bifurcation Structure of a Model of Bursting Pancreatic Cells

muller_obeyesekere_mills_ram_2008
Network topology determines dynamics of the mammalian MAPK1,2 signaling network: bifan motif regulation of C-Raf and B-Raf isoforms by FGFR and MC1R

nagerl_novo_mody_vergara_2000
Ca2+ Binding Kinetics of Calbindin-D28k

nash_panfilov_2004
An Electromechanical Model of Excitable Tissue to Study Reentrant Cardiac Arrhythmias

nelson_murray_perelson_2000
A Model of HIV-1 Pathogenesis

neumann_lam_dahari_gretch_wiley_layden_perelson_1998
Modelling Hepatitis C Viral Dynamics in Vivo and investigating the Antiviral Efficacy of Interferon-alpha Therapy

nevo_golding_neumann_schwartz_akselrod_2004
Modelling the Bright Side of Autoimmunity

niederer_hunter_smith_2006
Model Status

niederer_smith_2007
Model Status

noble_1962
Noble Purkinje Fibre Model 1962

noble_difrancesco_denyer_1989
Model Status

noble_noble_1984
Noble-Noble Model Of Sino-Atrial Node Electrical Activity, 1984

noble_noble_2001
Model Status

noble_noble_bett_earm_ho_so_1991
Model Status

noble_varghese_kohl_noble_1998
Noble Ventricular Cell Model 1998

novak_csikasz-nagy_gyorffy_chen_tyson_1998
Mathematical Model of the Fission Yeast Cell Cycle

novak_pataki_ciliberto_tyson_2001
Mathematical Model of the Cell Division Cycle of Fission Yeast

novak_tyson_1997
Modelling the Control of DNA Replication in Fission Yeast

nowak_bangham_1996
Modelling the Population Dynamics of Immune Responses to Persistent Viruses

nygren_fiset_firek_clark_lindblad_clark_giles_1998
Mathematical Model Of An Adult Human Atrial Cell, 1998

olsen_hauser_kummer_2003
Mechanism of Protection of Peroxidase Activity by Oscillatory Dynamics

oomens_maenhout_vanoijen_drost_baaijens_2003
Finite Element Modelling of Contracting Skeletal Muscle

ostby_oyehaug_einevoll_nagelhus_plahte_zeuthen_voipio_lloyd_ottersen_omholt_2008

palecek_horwitz_lauffenburger_1999
A Kinetic Model for Integrin-mediated Adhesion Release During Cell Migration

pandit_clark_giles_demir_2001
Adult Rat Left Ventricular Myocyte Model, 2001

pandit_giles_demir_2003
A model of electrophysiological alterations in rat ventricular myocytes in type-I diabetes

panerai_1980
A Model of Cardiac Muscle Mechanics and Energetics

pedersen_bertram_sherman_2005
Intra- and inter-islet synchronization of metabolically driven insulin secretion

perelson_neumann_markowitz_leonard_ho_1996
Modelling HIV-1 Dynamics In Vivo

plant_1981
Parabolic Bursting in Neurons

potter_greller_cho_nuttall_stroup_suva_tobin_2005
Response to continuous and pulsatile PTH dosing: a mathematical model for parathyroid hormone receptor kinetics

potter_zager_barton_2006
Modelling Androgenic Prostate Regulation

priebe_beuckelmann_1998
Electrophysiological Model of the Human Ventricular Myocyte

puglisi_bers_2001
An Interactive Computer Model Of Rabbit Ventricular Myocyte Ion Channels and Ca Transport, 2001

purvis_butera_2005
Ionic Current Model of Hypoglossal Motoneuron

purvis_smith_koizumi_butera_2007
Intrinsic Bursters Increase the Robustness of Rythm Generation in an Excitatory Network

ramirez_nattel_courtemanche_2000
Mathematical Model Of A Canine Atrial Action Potential, 2000

rattananakul_lenbury_krishnamara_wollkind_2003
Modeling of bone formation and resorption mediated by parathyroid hormone: response to estrogen/PTH therapy

razumova_bukatina_campbell_1999
Stiffness-distortion sacromere model for muscle stimulation

razumova_bukatina_campbell_2000
Different Myofilament Nearest-Neighbor Interactions Have Distinctive Effects on Contractile Behavior

reed_nijhout_sparks_ulrich_2004
A Mathematical Model of the Methionine Cycle

reidl_borowski_sensse_starke_zapotocky_eiswirth_2006
Model of Calcium Oscillations Due to Negative Feedback in Olfactory Cilia

revilla_garcia-ramos_2003
A Dynamic Model For HIV-1 Therapy

riccobene_omann_linderman_1999
A Model of Activation and Desensitisation of G-Protein Coupled Receptors

rice_jafri_winslow_2000
Modelling Interval-Force Relations in Cardiac Muscle

rice_wang_bers_detombe_2008
Approximate model of cooperative activation and crossbridge cycling in cardiac muscle using ordinary differential equations

rice_winslow_hunter_1999
Cooperative Mechanisms in Cardiac Muscle

rice_winslow_jafri_1999
Modelling the Functional Ca2+ Release Unit

riemer_sobie_tung_1998
Modelling Cardiac Stretch-Induced Arrhythmogenesis

rivlin_saunders_1951
The Mooney-Rivlin Constitutive Material Law

rogers_mcculloch_1994

roux_noble_noble_marhl_2006
Model Status

sachse_glanzel_seemann_2003
Modelling the Protein Interactions Involved in Cardiac Tension Development

sachse_moreno_abildskov_2008
Electrophysiological Modeling of Fibroblasts and Their Interaction with Myocytes

saftenku_williams_sitsapesan_2001
Markovian Models of Low and High Activity Levels of Cardiac Ryanodine Receptors

sakmann_spindler_bryant_linz_noble_2000
Distribution of a Persistent Sodium Current Across theVentricular Wall in Guinea Pigs

salem_saidel_stanley_cabrera_2002
Mathematical Mechanistic Model of Myocardial Metabolism during Ischemia

sarai_matsuoka_kuratomi_ono_noma_2003
Modelling the Roles of Individual Current Systems in Ventricular Cells and in the SA Node

sarkar_lauffenburger_2003
Computational Model of GCSF Endocytic Trafficking Dynamics

saucerman_bers_2008
CALMODULIN MEDIATES DIFFERENTIAL SENSITIVITY OF CAMKII AND CALCINEURIN TO LOCAL Ca2+ IN CARDIAC MYOCYTES

saucerman_brunton_michailova_mcculloch_2003

saucerman_mcculloch_2004
Modelling Cell Signalling Networks: A Case Study Of Myocyte Adrenergic Regulation

schlosser_selgrade_2000
Modelling Gonadotropin Regulation during the Menstrual Cycle in Women

schmid_nash_young_hunter_2006
The Separated Fung Law

schneider_shimayoshi_amano_matsuda_2006
Mechanism of the Frank-Starling law-- A simulation study with a novel cardiac muscle contraction model that includes titin and tropomyosin

schuster_beny_meister_2003
Modelling the Electrophysiological Endothelial Cell Response to Bradykinin

sedaghat_sherman_quon_2002
A Mathematical Model of Metabolic Insulin Signalling Pathways

seemann_sachse_weib_dossel_2003
Quantitative Reconstruction of Cardiac Electromechanics in Human Myocardium

shannon_wang_puglisi_weber_bers_2004
Modelling The Integrated Ca Dynamics Of The Ventricular Myocyte

shaw_chase_starfinger_smith_hann_desaive_ghuysen_2007
Modeling the Cardiovascular System

shaw_rudy_1997
Updated Luo-Rudy Mammalian Ventricular Model II

shiferaw_watanabe_garfinkel_weiss_karma_2003
Modelling Intracellular Calcium Cycling in Ventricular Myocytes

shorten_ocallaghan_davidson_soboleva_2007
A mathematical model of fatigue in skeletal muscle force contraction

shorten_robson_mckinnon_wall_2000
CRH-induced Electrical Activity and Calcium Signalling in Pituitary Corticotrophs

shorten_wall_2000
A Hodgkin-Huxley Model Exhibiting Bursting Oscillations

sine-approximations

skouibine_trayanova_moore_1999
The Defibrillation Beeler-Reuter Model

smith_1980
Hypothalamic regulation of pituitary secretion of luteinizing hormone. II. Feedback control of gonadotropin secretion

smith_crampin_2004
The Smith-Crampin Cardiac Sodium-Potassium Pump

sneyd_dufour_2002
A Dynamic Model Of The Type-2 Inositol Triphosphate Receptor

sneyd_tsaneva-atanasova_yule_thompson_shuttleworth_2004
Modelling the Control of Calcium Oscillations by Membrane Fluxes

sneyd_tsanevaatanasova_bruce_straub_giovannucci_yule_2003
A Model of Calcium Waves in Pancreatic and Parotid Acinar Cells

snyder_palmer_moore_2000
A Mathematical Model Of Cardiocyte Ca2+ Dynamics

sobie_dilly_dossantoscruz_lederer_jafri_2002
Mechanism of Cardiac Ca2+ Spark Termination

soboleva_vetharaniam_nixon_montenegro_pearson_sneyd_2005
Mathematical modelling of prolactin-receptor interaction and the corollary for prolactin receptor gene expression in skin

spiro_parkinson_othmer_1997
A Model Of Excitation And Adaptation In Bacterial Chemotaxis

starbuck_wiley_lauffenburger_1990
Epidermal Growth Factor Binding and Trafficking Dynamics in Fibroblasts

stern_song_sham_yang_boheler_rios_1999
Ryanodine Receptor Gating Kinetics in Cardiac Muscle

sthilaire_gronfier_zeitzer_klerman_2007
A physiologically based mathematical model of melatonin including ocular light suppression and interactions with the circadian pacemaker

stilianakis_dietz_schenzle_1997
Modelling the Pathogenesis of AIDS

surkis_peskin_tranchina_leonard_1998
Modelling the Membrane Behaviour of LDT Neurons

swanson_true_lin_buhler_vessella_murray_2001
A Model for the Dynamics of Serum Prostate-Specific Antigen as a Marker for Cancerous Growth

tabak_toporikova_freeman_bertram_2007
Low dose of dopamine may stimulate prolactin secretion by increasing fast potassium currents

tentusscher_noble_noble_panfilov_2004
A Model For Human Ventricular Tissue

tentusscher_noble_noble_panfilov_2006

tentusscher_panfilov_2006
Alternans and spiral breakup in a human ventricular tissue model

terkildsen_niederer_crampin_hunter_smith_2008
Using Physiome standards to couple cellular functions for rat cardiac excitation-contraction

teusink_passarge_reijenga_esgalhado_vanderweijden_schepper_walsh_bakker_vandam_westerhoff_snoep_2000
Understanding Yeast Glycolysis in Terms of the in vitro Kinetics of the Constituent Enzymes

thomas_2000
Inner medullary lactate production and accumulation: a vasa recta model

thomsen_neubig_1989
Model Of G-Protein Activation

tolic_mosekilde_sturis_2000
Modelling the Insulin-Glucose Feedback System

tomida_hirose_takizawa_shibasaki_iino_2003

topp_promislow_devries_miura_finegood_2000
A Model of Beta-cell Mass, Insulin, and Glucose Kinetics

tyson_1991
Modelling the Cell Division Cycle: cdc2 and Cyclin Interactions

tyson_hong_thron_novak_1999
A Simple Model of Circadian Rhythms Based on Dimerization and Proteolysis of PER and TIM

ueda_hagiwara_kitano_2001
Interlocked Feedback Model of Drosophila Circadian Rhythm

vancapelle_durrer_1980

vanderpol_vandermark_1928
The Heartbeat Considered as a Relaxation Oscillation, and an Electrical Model of the Heart

vangoor_lebeau_krsmanovic_sherman_catt_stojilkovic_2000
Amplitude-Dependent Spike-Broadening In GnRH-Secreting Neurons

vaseghi_baumeister_rizzi_reuss_1999
The Pentose Phosphate Pathway in Saccharomyces cerevisiae

vempati_karagiannis_popel_2007
A Biochemical Model of Matrix Metalloproteinase 9 Activation and Inhibition

vendelin_kongas_saks_2000
Reaction-Diffusion Model of Energy Transfer During Mitochondrial Respiration in Heart Cells

vilar_kueh_barkai_leibler_2002
Modelling a Genetic Oscillator

viswanathan_shaw_rudy_1999
Updated Luo-Rudy Mammalian Ventricular Model II

wanant_quon_2000
Insulin Receptor Binding Kinetics: A Divalent Receptor Model

wang_krueger_buja_2003
Reaction-Diffusion Model of Energy Transfer During Mitochondrial Respiration in Heart Cells

wang_li_kuang_2007
Mathematical modeling and qualitative analysis of insulin therapies

wang_lin_lin_wu_2008
Effect of riluzole on action potential in cultured human skeletal muscle cells

warashina_ogura_2004
Modelling Stimulation-Sectretion Coupling in a Chromaffin Cell

waugh_sherratt_2006
Macrophage dynamics in diabetic wound dealing

waugh_sherratt_2007
Modeling the effects of treating diabetic wounds with engineered skin substitutes

webb_sherratt_fish_2002
Cells behaving badly: a theoretical model for the Fas/FasL system in tumour immunology

weinstein_1998

westermark_lansner_2003
A Model of Pancreatic Beta-Cell Glycolysis

wilkins_sneyd_1998
Modelling Intercellular Spiral Waves of Calcium

winograd_destexhe_sanchezvives_2008
Hyperpolarization-Activated Graded Persistent Activity in the Prefrontal Cortex

winslow_rice_jafri_marban_ororke_1999
Canine Ventricular Cell Model, 1999

wodarz_2003
Modelling the Evolution of Immunological Memory

wodarz_hamer_2007
Infection dynamics in HIV-specific CD4 T cells: Does a CD4 T cell boost benefit the host or the virus?

wodarz_jansen_2003
Modelling CTL Dynamics: Implications for Cancer Immunology

wodarz_nowak_1999
Modelling the Interaction between HIV and the Immune System

wodarz_sierro_klenerman_2007
Dynamics of killer T cell inflation in viral infections

wolf_heinrich_2000
Effect of Cellular Interaction on Glycolytic Oscillations in Yeast

wolf_passarge_somsen_snoep_heinrich_westerhoff_2000
Yeast Glycolytic Oscillations

wolf_sohn_heinrich_kuriyama_2001
Metabolic Oscillations in Saccharomyces cerevisiae

wu_jeneson_beard_2006
Oxidative ATP Synthesis in Skeletal Muscle is Controlled by Substrate Feedback

wu_yang_vinnakota_beard_2007
Computer Modeling of Mitochondrial Tricarboxylic Acid Cycle, Oxidative Phosphorylation, Metabolite Transport, and Electrophysiology

yamaguchi_takaki_matsubara_yasuhara_suga_1996
Constancy and variability of contractile efficiency as a function of calcium and cross-bridge kinetics: simulation

yang_clark_bryan_robertson_2003
The myogenic response in isolated rat cerebrovascular arteries: a smooth muscle cell model

yang_tong_mccarver_hines_beard_2006
An Age-Dependent Physiologically Based Pharmokinetic Model of Methadone Distribution and Metabolism

yasamura_suga_1987
Crossbridge Model Compatible with the Linear Relationship between Left Ventricular Oxygen Consumption and Pressure-Volume Area

yates_stark_klein_antia_callard_2007
Modelling the Slow Depletion of Memory CD4+ T Cells in HIV Infection

yi_fogelson_keener_peskin_2003
Modelling Volume Shifts and Ionic Concentration Changes during Ischemia and Hypoxia

youm_kim_han_kim_joo_leem_goto_noma_earm_2006
A mathematical model of pacemaker activity recorded from mouse small intestine

zager_schlosser_tran_2007
A Delayed Nonlinear PBPK Model for Genistein Dosimetry in Rats

zeng_laurita_rosenbaum_rudy_1995
Updated Luo-Rudy Mammalian Ventricular Model II

zhang_holden_kodama_honjo_lei_varghese_boyett_2000
Mathematical Model Of Action Potentials In The Periphery Of The Sinoatrial Node, 2000

zhu_2000
Endothelin-1-induced Cardiomyocyte Hypertrophy

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.