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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.

Terms of use

Currently available models

adrian_chandler_hodgkin_1970
Voltage clamp experiments in striated muscle fibres

aguda_b_1999
A quantitative analysis of the kinetics of the G2 DNA damage checkpoint system

aguda_tang_1999
The kinetic origins of the restriction point in the mammalian cell cycle

albert_haanstra_hannaert_vanroy_opperdoes_bakker_michels_2005

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 I: Attenuation of Endoplasmic Reticulum Ca2+ Accumulation at Low [Ca2+]i during Weak Depolarisation

alexander_wahl_2010
Self-tolerance and Autoimmunity in a Regulatory T Cell Model

aon_cortassa_2002
Coherent and robust modulation of a metabolic network by cytoskeletal organization and dynamics

aslanidi_atrial_model_2009
Mechanisms of transition from normal to reentrant electrical activity in a model of rabbit atrial tissue: interaction of tissue heterogeneity and anisotropy

aslanidi_purkinje_model_2009
Optimal velocity and safety of discontinuous conduction through the heterogeneous Purkinje-ventricular junction

asthagiri_lauffenburger_2001
A Compuational Study of Feedback Effects on Signal Dynamics in a Mitogen-Activated Protein Kinase (MAPK) Pathway Model

bagci_2006
Bistability in apoptosis: roles of bax, bcl-2, and mitochondrial permeability transition pores

bagci_2008
Computational insights on the competing effects of nitric oxide in regulating apoptosis

bakker_mensonides_teusink_vanhoek_michels_westerhoff_2000
Compartmentation protects trypanosomes from the dangerous design of glycolysis

bakker_michels_opperdoes_westerhoff_1997
Glycolysis in Bloodstream Form Trypanosoma brucei Can Be Understood in Terms of the Kinetics of the Glycolytic Enzymes

barberis_klipp_vanoni_alberghina_2007
Cell Size at S Phase Initiation: An Emergent Property of the G1/S Network

baylor_hollingworth_chandler_2002
Comparison of Simulated and Measured Calcium Sparks in Intact Skeletal Muscle Fibers of the Frog

beard_2005
A biophysical model of the mitochondrial respiratory system and oxidative phosphorylation

beeler_reuter_1977
Reconstruction of the action potential of ventricular myocardial fibres

benson_2008
The canine virtual ventricular wall: a platform for dissecting pharmacological effects on propagation and arrhythmogenesis

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
Role for G protein G-beta-gamma isoform specificity in synaptic signal processing: a computational study

bertram_previte_sherman_kinard_satin_2000
The Phantom Burster Model for Pancreatic Beta Cells

bertram_rhoads_cimbora_2008
A phantom bursting mechanism for episodic bursting

bertram_satin_pedersen_luciani_sherman_2007
Intra- and inter-islet synchronization of metabolically driven insulin secretion

bertram_satin_zhang_smolen_sherman_2004
Calcium and Glycolysis Mediate Multiple Bursting Modes in Pancreatic Islets

bertram_sherman_2004
A Calcium-based Phantom Bursting Model for Pancreatic Islets

bertram_smolen_sherman_mears_atwater_martin_soria_1995
A role for calcium release-activated current (CRAC) in cholinergic modulation of electrical activity in pancreatic beta-cells

bhalla_iyengar_1999
Emergent Properties of Networks of Biological Signaling Pathways

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
Computer model of action potential of mouse ventricular myocytes

bonhoeffer_rembiszewski_ortiz_nixon_2000
Risks and benefits of structured antiretroviral drug therapy interruptions in HIV-1 infection

borghans_1997
Complex intracellular calcium oscillations. A theoretical exploration of possible mechanisms

bornheimer_maurya_farquhar_subramaniam_2004
Computational modeling reveals how interplay between components of a GTPase-cycle module regulates signal transduction

boyett_zhang_garny_holden_2001
Control of the pacemaker activity of the sinoatrial node by intracellular Ca2+. Experiments and modelling

brightman_fell_2000
Differential feedback regulation of the MAPK cascade underlies the quantitative differences in EGF and NGF signalling in PC12 cells.

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

bueno_2007
Mathematical modeling and spectral simulation of genetic diseases in the human heart

butera_rinzel_smith_1999
Models of Respiratory Rhythm Generation in the Pre-Botzinger Complex. I. Bursting Pacemaker Neurons

butera_rinzel_smith_II_1999

calzone_thieffry_tyson_novak_2007
Dynamical modeling of syncytial mitotic cycles in Drosophila embryos

campbell_chandra_2006
Functions 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
A numerical model of acid-base transport in rat distal tubule

chang_fujita_b_1999
A numerical model of the renal distal tubule

chassagnole_rais_quentin_fell_mazat_2001
An integrated study of Threonine-pathway enzyme kinetics in Escherichia coli

chauhan_legewie_westermark_lorenzen_herzel_2008

chay_1997
Effects of extracellular calcium on electrical bursting and intracellular and luminal calcium oscillations in insulin secreting pancreatic beta-cells

chay_lee_fan_1995
Appearance of Phase-locked Wenchbach-like Rhythms, Devil's Staircase and Universality in Intracellular Calcium Spikes in Non-excitable Cell Models

chen_calzone_csikasznagy_cross_novak_tyson_2004
Integrative Analysis of Cell Cycle Control in Budding Yeast

chen_csikasz-nagy_gyorffy_val_novak_tyson_2000
Kinetic Analysis of a Molecular Model of 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
Mathematical Model of the Morphogenesis Checkpoint in Budding Yeast

ciliberto_petrus_tyson_sible_2003
A kinetic model of the cyclin E/Cdk2 developmental timer in Xenopus

ciliberto_tyson_2000
Mathematical Model for Early Development of the Sea Urchin Embryo

clancy_rudy_2001
Cellular consequences of HERG mutations in the long QT syndrome: precursors to sudden cardiac death

clancy_rudy_2002
Na Channel Mutation That Causes Both Brugada Syndrome and Long-QT Syndrome Phenotypes: A Simulation Study of Mechanism

cloutier_2009
An integrative dynamic model of brain energy metabolism using in vivo neurochemical measurements

cloutier_wellstead_2009
The control systems structures of energy metabolism

colegrove_albrecht_friel_2000
Quantitive Analysis of Mitochondrial Ca2+ Uptake and Release Pathways in Sympathetic Neurons Reconstruction of the Recovery after Depolarisation-evoked [Ca2+] Elevations

conradie_bruggeman_ciliberto_csikasz-nagy_novak_westerhoff_snoep_2010
Restriction point control of the mammalian cell cycle via the cyclin E/Cdk2:p27 complex

cooling_hunter_crampin_2007

cooling_hunter_crampin_2009

cooling_hunter_crampin_CellML_2008

corrias_buist_2007
Corrias, Buist, 2007

corrias_buist_2008
Quantitative cellular description of gastric slow wave activity

cortassa_aon_marban_winslow_orourke_2003
An Integrated Model of Cardiac Mitrochondrial Energy Metabolism and Calcium Dynamics

cortassa_aon_winslow_orourke_2004
A mitochondrial oscillator dependent on reactive oxygen species

costa_holmes_mcculloch_2001
Modelling Cardiac Mechanical Properties In Three Dimensions

courtemanche_ramirez_nattel_1998
Ionic mechanisms underlying human atrial action potential properties: insights from a mathematical model

cronwright_rohwer_prior_2002
Metabolic Control Analysis of Glycerol Synthesis in Saccharomyces cerevisiae

csilkasz_nagy_2006
Analysis of a generic model of eukaryotic cell-cycle regulation: budding yeast taken from the original model code

cui_kaandorp_2006
Mathematical modeling of calcium homeostasis in yeast cells

cui_kaandorp_2008
Simulating Complex Calcium-Calcineurin Signaling Network

cui_kaandorp_lloyd_2008
Simulating in vitro transcriptional response of zinc homeostasis system in Escherichia coli

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 varied O2, CO2, pH, 2,3-DPG and temperature levels

dawson_lea_irvine_2003
Kinetic model of the inositol trisphosphate receptor that shows both steady-state and quantal patterns of Ca2+ release from intracellular stores

decker_2009
Properties and ionic mechanisms of action potential adaptation, restitution, and accommodation in canine epicardium

demir_clark_giles_1999
Parasympathetic modulation of sinoatrial node pacemaker activity in rabbit heart: a unifying model

demir_clark_giles_murphey_1994
A Mathematical Model of a Rabbit Sinoatrial Node Cell

demiray_1981
Large deformation analysis of some soft biological tissues

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
Channel Sharing in Pancreatic Beta-Cells Revisited: Enhancement of Emergent Bursting by Noise

devries_sherman_2001
From Spikers to Bursters Via Coupling: Help from Heterogeneity

deyoung_keizer_1992
A single-pool inositol 1,4,5-triphosphate-receptor-based model for agonist-stimulated oscillations in Ca 2+ concentration

difrancesco_noble_1985
A Model of Cardiac Electrical Activity Incorporating Ionic Pumps and Concentration Changes

dijkstra_neal_beever_france_1992
Simulation of nutrient digestion, absorption and outflow in the rumen: model description

dixit_perelson_2004
Complex patterns of viral load decay under antiretroviral therapy: influence of pharmacokinetics and intracellular delay

dokos_celler_lovell_1996
Ion currents underlying sinoatrial node pacemaker activity: a new single cell mathematical model

dokos_celler_lovell_b_1996

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

drouhard_roberge_1987
Revised formulation of the Hodgkin-Huxley representation of the sodium current in cardiac cells

dumaine_towbin_brugada_vatta_nesterenko_nesterenko_brugada_brugada_antzelevitch_1999
Ionic mechanisms responsible for the electrocardiographic phenotype of the Brugada Syndrome are temperature dependent

dupont_berridge_goldbeter_1991
Signal-induced Ca2+ oscillations: Properties of a model based on (Ca2+)-induced Ca2+ release

dupont_goldbeter_1992
Protein phosphorylation driven by intracellular calcium oscillations: A kinetic analysis

earm_noble_1990
A Model of the Single Atrial Cell: Relation between Calcium Current and Calcium Release

ebihara_johnson_1980
Fast sodium current in cardiac muscle: A quantitative description

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

elowitz_leibler_2000
A Synthetic Oscillatory Network of Transciptional Regulators

enciso_sontag_2004
On the stability of a model of testosterone dynamics

endresen_1996
Chaos in Weakly-coupled Pacemaker Cells

eskandari_wright_loo_2005
Kinetics of the Reverse Mode of the Na+/Glucose Cotransporter

espinosa_1998
L'Echange Na+/Ca2+ dans l'Hypertrophie Ventriculaire D'Altitude chez le Rat: Etude Electrophysiologique et Utilisation du Modele "Oxsoft Heart"

evans_errington_shelly_feeney_chapman_godfrey_smith_chappell_2004
A mathematical model for the in vitro kinetics of the anti-cancer agent topotecan

faber_rudy_2000
Action potential and contractility changes in [Na(+)](i) overloaded cardiac myocytes: a simulation study.

fall_keizer_2001
Mitochondrial Modulation of Intracellular Ca2+ Signalling

fallon_lauffenburger_2000
Computational Model for Effects of Ligand/Receptor Binding Properties on Interleukin-2 Trafficking Dynamics and T Cell Proliferation Response

farhy_bowers_veldhuis_2007
Model-projected mechanistic bases for sex differences in growth hormone regulation in humans.

faville_pullan_sanders_koh_lloyd_smith_2009

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

fenton_karma_1998
Vortex dynamics in three-dimensional continuous myocardium with fiber rotation: Filament instability and fibrillation

fenton_karma_2006

fink_noble_virag_varro_giles_2008
Contributions of HERG K+ current to repolarization of the human ventricular action potential

fink_slepchenko_loew_1999
Determination of time-dependent inositol-1,4,5-triphosphate concentrations during calcium release in a smooth muscle cell

fink_slepchenko_moraru_watras_schaff_loew_2000
An image-based model of calcium waves in differentiated neuroblastoma cells

fitzhugh_1961
Impulses and Physiological States in Theoretical Models of Nerve Membrane

flynn_green_pedley_boxer_dearling_watson_boden_begent_2002
A Model-Based Approach for the Optimization of Radioimmunotherapy through Antibody Design and Radionuclide Selection

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

fox_mcharg_gilmour_2002
Ionic mechanism of electrical alternans

fridlyand_tamarina_philipson_2003
Modeling of Ca2+ flux in pancreatic beta-cells: role of the plasma membrane and intracellular stores

friel_1995

fujita_toyoshima_uda_ozaki_kubota_kuroda_2010
Decoupling of receptor and downstream signals in the Akt pathway by its low-pass filter characteristics

gall_susa_1999
Effect of Na/Ca Exchange on Plateau Fraction and [Ca]i in Models for Bursting in Pancreatic Beta-Cells

gardner_dolnik_collins_1998
A theory for controlling cell cycle dynamics using a reversibly binding inhibitor

garmendia-torres_goldbeter_jacquet_2007

garny_kohl_hunter_boyett_noble_2003
One-dimensional Rabbit Sinoatrial Node Models: Benefits and Limitations

gasser_ogden_holzapfel_2006
Hyperelastic modelling of arterial layers with distributed collagen fibre orientations

gerard_goldbeter_2009
Temporal self-organization of the cyclin/Cdk network driving the mammalian cell cycle

gilbert_heiner_rosser_fulton_gu_trybilo_2007
A Case Study in Model-driven Synthetic Biology

goforth_bertram_khan_zhang_sherman_satin_2002
Calcium-activated K+ Channels of Mouse Beta Cells are Controlled by Both Store and Cytoplasmic Ca2+: Experimental and Theoretical Studies

goldbeter_1991

goldbeter_1995

goldbeter_2006

goldbeter_dupont_berridge_1990

goldbeter_gonze_pourquie_2007

goldbeter_pourquie_2008
Modeling the segmentation clock as a network of coupled oscillations in the Notch, Wnt and FGF signaling pathways

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

goodwin_1965
Oscillatory behavior in enzymatic control processes

grandi_pasqualini_bers_2010

grange_2001
A pharmacokinetic model to predict the PK interaction of L-dopa and benserazide in rats

greenstein_wu_po_tomaselli_winslow_2000
Role of the Calcium-Independent Transient Outward Current Ito1 in Shaping Action Potential Morphology and Duration

gross_and_hopfer_1998

gross_and_hopfer_1999

grossman_feinberg_kuznetsov_dimitrov_paul_1998
HIV infection: how effective is drug combination treatment?

guccione_mcculloch_waldman_1991
Passive Material Properties of Intact Ventricular Myocardium Determined From a Cylindrical Model

gupta_aslakson_gurbaxani_vernon_2007
Inclusion of the glucocorticoid receptor in a hypothalamic pituitary adrenal axis model reveals bistability

gupta_maurya_stephens_dennis_subramanium_2009
An integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis

guyton_2008
Description of Guyton 1992 Full Cardiovascular Circulation Model

guyton_aldosterone_2008

guyton_angiotensin_2008

guyton_antidiuretic_hormone_2008

guyton_atrial_natriuretic_peptide_2008

guyton_autonomics_2008

guyton_capillary_dynamics_2008

guyton_circulatory_dynamics_2008

guyton_electrolytes_2008

guyton_heart_hypertrophy_or_deterioration_2008

guyton_heart_rate_and_stroke_volume_2008

guyton_kidney_2008

guyton_muscle_blood_flow_control_2008

guyton_muscle_oxygen_delivery_2008

guyton_non_muscle_blood_flow_control_2008

guyton_non_muscle_oxygen_delivery_2008

guyton_pulmonary_fluid_dynamics_2008

guyton_pulmonary_oxygen_uptake_2008

guyton_red_cells_and_viscosity_2008

guyton_stress_relaxation_2008

guyton_thirst_drinking_and_salt_appetite_2008

guyton_volume_receptors_2008

hai_murphy_1988
Cross-bridge phosphorylation and regulation of latch state in smooth muscle

halloy_bernard_loussouarn_goldbeter_2002

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
A mathematical description of 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

heldt_2002
Computational modeling of cardiovascular response to orthostatic stress

herz_bonhoeffer_anderson_may_nowak_1996
Viral Dynamics in vivo: Limitations on estimates of intracellular delay and virus decay

heyd_drew_2003
A mathematical model for elongation of a peptide chain

hilgemann_noble_1987
Excitation-contraction coupling and extracellular calcium transients in rabbit atrium: reconstruction of basic cellular mechanisms

hinch_greenstein_tanskanen_xu_winslow_2004
A Simplified Local Control Model of Calcium-Induced Calcium Release in Cardiac Ventricular Myocytes

hodgkin_huxley_1952
A quantitative description of membrane current and its application to conductance and excitation in nerve

hoefnagel_starrenburg_martens_hugenholtz_kleerebezem_vanswam_bongers_westerhoff_snoep_2002
Metabolic engineering of lactic acid bacteria, the combined approach: kinetic modelling, metabolic control and experimental analysis

holmes_2006
Teaching from classic papers: Hill's model of muscle contraction

hornberg_binder_bruggeman_schoeberl_heinrich_westerhoff_2005
Control of MAPK signalling: from complexity to what really matters

houart_dupont_goldbeter_1999

huang_ferrell_1996
Ultrasensitivity in the mitogen-activated protein kinase cascade

hund_rudy_2004
Rate dependence and regulation of action potential and calcium transient in a canine cardiac ventricular cell model

hunter_mcculloch_terkeurs_1998
Modelling the mechanical properties of cardiac muscle

hunter_mcnaughton_noble_1975
Analytical models of propagation in excitable cells

hunter_smaill_hunter_1995
A pole-zero constitutive law for myocardium

hynne_dano_sorensen_2001
Full-scale model of glycolysis in Saccharomyces cerevisiae

iancu_2007
Compartmentation of cAMP signaling in cardiac myocytes: a computational study

iber_maini_2002
A Mathematical Model for Germinal Centre Kinetics and Affinity Maturation

inada_2009
One-dimensional mathematical model of the atrioventricular node including atrio-nodal, nodal, and nodal-his cells

international_si_units_2006
International SI Units, 2006

iribe_kohl_noble_2006
Modulatory effect of calmodulin-dependent kinase II (CaMKII) on sarcoplasmic reticulum Ca2+ handling and interval-force relations: a modelling study.

irvine_jafri_winslow_1999
Cardiac sodium channel Markov model with temperature dependence and recovery from inactivation

itskov_ehret_mavrilas_2006
A Polyconvex Anisotropic Strain-Energy Function for Soft Collagenous Tissues

iyer_hajjar_armoundas_2007
Mechanisms of Abnormal Calcium Homeostasis in Mutations Responsible for Catecholaminergic Polymorphic Ventricular Tachycardia

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
Cardiac Ca2+ Dynamics: The Roles of Ryanodine Receptor Adaptation and Sarcoplasmic Reticulum Load

jelic_cupic_kolaranic_2005
A Hypothalamic-Pituitary-Adrenal System Model: Full Model

joseph_zavros_merchant_kirschner_2003
A model for integrative study of 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
Ryanodine Receptor Adaptation and Ca2+-Induced Ca2+ Release-Dependent Ca2+ Oscillations

kesmir_deboer_1999
A Mathematical Model on Germinal Center Kinetics and Termination

kholodenko_demin_moehren_hoek_1999
Quantification of short term signalling by the epidermal growth

kirschner_panetta_1998
Modeling immunotherapy of the tumor-immune interaction

kirschner_webb_1996
A Model For Treatment Strategy In The Chemotherapy Of AIDS

kneller_ramirez_chartier_courtemanche_nattel_2002
Time-dependent transients in an ionically based mathematical model of the canine atrial action potential

koivumaki_2009
Modelling Sarcoplasmic Reticulum Calcium APTase and its Regulation in Cardiac Myocytes

komarova_2005
Mathematical model of paracrine interactions between osteoclasts and osteoblasts predicts anabolic action of parathyroid hormone on bone

komarova_smith_dixon_sims_wahl_2003
Mathematical model predicts a critical role for osteoclast autocrine regulation in the control of bone remodeling

komarova_wodarz_2003
Evolutionary Dynamics of Mutator Phenotypes in Cancer: Implications for Chemotherapy

kongas_vanbeek_2001
Creatine kinase in energy metabolic signaling in muscle

korzeniewski_zoladz_2001
A model of oxidative phosphorylation in mammaliam skeletal muscle

kroll_2000
Parathyroid hormone temporal effects on bone formation and resorption

kurata_hisatome_imanishi_shibamoto_2002
Dynamical description of sinoatrial node pacemaking: improved mathematical model for primary pacemaker cell

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

lambeth_kushmerick_2002
A computational model for 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
Generation of Action Potentials in a Mathematical Model of Corticotrophs

lebeau_yule_groblewski_sneyd_1999
Agonist-dependent Phosphorylation of the Inositol 1,4,5-Triphosphate Receptor

leloup_goldbeter_1998

leloup_goldbeter_2003

leloup_goldbeter_2004

leloup_gonze_goldbeter_1999

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

lemon_gibson_bennett_2003
Metabotropic receptor activation, desensitization and sequestration-I: modelling calcium and inositol 1,4,5-trisphosphate dynamics following receptor activation

lenbury_pacheenburawana_1991
Modelling fluctuation phenomena in the plasma cortisol secretion system in normal man

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

lenbury_ruktamatakul_amornsamarnkul_2001
Modeling insulin kinetics: responses to a single oral glucose administration or ambulatory-fed conditions

li_bertram_rinzel_1996
Modeling N-methyl-D-aspartate-induced bursting in dopamine neurons

li_kuang_mason_2006
Modeling the glucose-insulin regulatory system and ultradian insulin secretory oscillations with two explicit time delays

li_rinzel_1994
Equations for InsP3 Receptor-mediated [Ca2+]i Oscillations Derived from a Detailed Kinetic Model: A Hodgkin-Huxley Like Formalism

li_smith_2009

lindblad_murphey_clark_giles_1996
A Model of the Action Potential and Underlying Membrane Currents in a Rabbit Atrial Cell

liu_hu_peng_liu_1999
A dynamical model for the pulsatile secretion of the hypothalamo-pituitary-adrenal axis

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

lockwood_ewy_hermann_holford_2006
Application of clinical trial simulation to compare proof-of-concept study designs for drugs with a slow onset of effect; an example in Alzheimer's disease

lovell_cloherty_celler_dokos_2004
A gradient model of cardiac pacemaker myocytes

luo_rudy_1991
A Model of the Ventricular Cardiac Action Potential. Depolarization, repolarization and their interaction

luo_rudy_1994
A Dynamic Model of the Cardiac Ventricular Action Potential I. Simulations of Ionic Currents and Concentration Changes

macgregor_leng_2005
Modelling the hypothalamic control of growth hormone secretion.

mackenzie_loo_panayotova-heiermann_wright_1996
Biophysical Characteristics of the Pig Kidney Na/Glucose Cotransporter SGLT2 Reveal a Common Mechanism for SGLT1 and SGLT2

magnus_keizer_1997
Minimal Model of beta-cell mitochondrial Ca2+ handling

magnus_keizer_1998
Model of beta_cell mitochondrial calcium handling and electrical activity. I. Cytoplasmic variables

mahajan_shiferaw_sato_baher_olcese_xie_yang_chen_restrepo_karma_garfinkel_qu_weiss_2008
A rabbit ventricular action potential model replicating cardiac dynamics at rapid heart rates

maldonado_borchers_findeisen_allgower_2006
Mathematical modeling and analysis of force induced bone growth

maleckar_greenstein_trayanova_giles_2009
Mathematical simulations of ligand-gated and cell-type specific effects on the action potential of human atrium

maltsev_2009
Synergism of coupled subsarcolemmal Ca2+ clocks and sarcolemmal voltage clocks confers robust and flexible pacemaker function in a novel pacemaker cell model.

maly_wiley_lauffenburger_2004
Self-Organization of Polarized Cell Signaling via Autocrine Circuits: Computational Model Analysis

malys_2010

marcano_yang_nievesgonzalez_clausen_moore_2009

margaridamartins_mendes_coreiro_pocesfreire_2001
In situ kinetic analysis of glyoxalase I and glyoxalase II in Saccharomyces cerevisiae

marhl_haberichter_brumen_heinrich_2000
Complex calcium oscillations and the role of mitochondria and cytosolic proteins

marhl_schuster_brumen_heinrich_1997
Modelling the interrelations 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
Theory of Time-Resolved Somatic Complementation and Its Use to Explore the Sporulation Control Network in Physarum polycephalum

matsuoka_sarai_kuratomi_ono_noma_2003
Role of individual ionic current systems in ventricular cells hypothesized by a model study

maurya_bornheimer_venkatasubramanian_subramaniam_2005
Reduced-order modelling of biochemical networks: application to the GTPase-cycle signalling module

mazhari_greenstein_winslow_marban_nuss_2001
Molecular Interactions Between Two Long-QT Syndrome Gene Products, HERG and KCNE2, Rationalized by In Vitro and In Silico Analysis

mcallister_noble_tsien_1975
Reconstruction of the electrical activity of cardiac Purkinje fibres.

mckenzie_sneyd_1998
On the Formation and Breakup of Spiral Waves of Calcium

mclean_su_vandenbogert_2003
Development and Validation of a 3-D Model to Predict Knee Joint Loading During Dynamic Movement

mears_sheppard_atwater_rojas_bertram_sherman_1997
Evidence That Calcium Release-activated Current Mediates the Biphasic Electrical Activity of Mouse Pancreatic Beta-Cells

michailova_mcculloch_2001
Model study of ATP and ADP buffering, transport of Ca2+ and Mg2+, and regulation of ion pumps in ventricular myocyte

michailova_saucerman_belik_mcculloch_2005
Modeling regulation of cardiac KATP and L-type Ca2+ currents by ATP, ADP, and Mg2+

miftakhov_abdusheva_christensen_1999
Numerical Simulation of Motility Patterns of the Small Bowel. I. Formulation of a Mathematical Model

mijailovich_butler_fredburg_2000
Perturbed Equilibria of Myosin Binding in Airway Smooth Muscle: Bond-Length Distributions, Mechanics and ATP Metabolism

mikane_araki_kohno_nakayama_suzuki_shimuzi_matsubara_hirakawa_takaki_suga_1997
Mechanism of Constant Contractile Efficiency Under Cooling Intropy of Myocardium: Simulation

mitchell_schaeffer_2003
A two-current model for the dynamics of cardiac membrane

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 - Regulatory Subsystem Physiological Considerations

mohr_taylor_newell_2008
Mohr, Taylor, Newell, 2008

moore_li_2004
A mathematical model for chronic myelogenous leukemia (CML) and T cell interaction

morris_lecar_1981
Voltage oscillations in the barnacle giant muscle fiber

mosekilde_lading_yanchuk_maistrenko_2001
Bifurcation structure of a model of bursting pancreatic cells

moss_kazmierczak_kirley_harris_2009
A computational model for emergent dynamics in the kidney

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

nagano_gerritsen_2001
Effects of Neuromuscular Strength Training on Vertical Jumping Performance - A Computer Simulation Study

nagerl_novo_mody_vergara_2000
Binding Kinetics of Calbindin-D28k Determined by Flash Photolysis of Caged Ca2+

nash_panfilov_2004
Electromechanical model of excitable tissue to study reentrant cardiac arrhythmias

nazaret_heiske_thurley_mazat_2009
Mitochondrial energetic metabolism: a simplified model of TCA cycle with ATP production (unscaled version)

nelson_murray_perelson_2000
A model of HIV-1 pathogenesis that includes an intracellular delay

nelson_perelson_1995
Modeling defective interfering virus therapy for AIDS: conditions for DIV survival

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

nevo_golding_neumann_schwartz_akselrod_2004
Nevo et al.'s 2004 mathematical model of autoimmunity.

niederer_hunter_smith_2006
A quantitative analysis of cardiac myocyte relaxation: a simulation study

niederer_smith_2007
A Mathematical Model of the Slow Force Response to Stretch in Rat Ventricular Myocytes

noble_1962
A Modification of the Hodgkin-Huxley Equations Applicable to Purkinje Fibre Action and Pace-Maker Potentials

noble_2000
Improved guinea-pig ventricular cell model incorporating a diadic space, IKr and IKs, and length- and tension-dependent processes.

noble_difrancesco_denyer_1989
Ionic Mechanisms in Normal and Abnormal Cardiac Pacemaker Activity

noble_noble_1984
A Model of Sino-Atrial Node Electrical Activity Based on a Modification of the DiFrancesco-Noble (1984) Equations

noble_noble_2001
Remodelling of Calcium Dynamics in Guinea-Pig Ventricular Cells

noble_noble_bett_earm_ho_so_1991
The Role of Sodium-Calcium Exchange During the Cardiac Action Potential

noble_varghese_kohl_noble_1998
Improved guinea-pig ventricular cell model incorporating a diadic space, IKr and IKs, and length- and tension-dependent processes.

novak_csikasznagy_gyorffy_chen_tyson_1998
Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions

novak_pataki_ciliberto_tyson_2001
Mathematical model of the cell division cycle of fission yeast

novak_tyson_1993
Numerical analysis of a comprehensive model of M-phase control in Xenopus oocyte extracts and intact embryos.

novak_tyson_1997
Modeling the control of DNA replication in fission yeast

novak_tyson_2004
A model for restriction point control of the mammalian cell cycle

nowak_bangham_1996
Population dynamics of immune responses to persistent viruses

nygren_fiset_firek_clark_lindblad_clark_giles_1998
Mathematical Model of an Adult Human Atrial Cell: The Role of K+ Currents in Repolarization

obeyesekere_zimmerman_tecarro_auchmuty_1999
A model of cell cycle behavior dominated by kinetics of a pathway stimulated by growth factors

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
Astrocytic processes explaining neural-activity-induced shrinkage of extraneuronal space

overgaard_2007
PKPD model of interleukin-21 effects on thermoregulation in monkeys--application and evaluation of stochastic differential equations

oyehaug_ostby_lloyd_omholt_einevoll_2011
Dependence of spontaneous neuronal firing and depolarization block on astroglial membrane processes: Fig 2B

oyehaug_ostby_lloyd_ottersen_omholt_einevoll_2009
Dependence of spontaneous neuronal firing and depolarization block on astroglial membrane processes: Fig 2A

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

pandit_clark_giles_demir_2001
A Mathematical Model of Action Potential Heterogeneity in Adult Rat Left Ventricular Myocytes

pandit_giles_demir_2003
A Mathematical Model of the Electrophysiological Alterations in Rat Ventricular Myocytes in Type-I Diabetes

panerai_1980
A Model of Cardiac Muscle Mechanics and Energetics

parent_supplisson_loo_wright_1992
Electrogenic Properties of the Cloned Na+/Glucose Cotransporter: II. A Transport Model under Nonrapid Equilibrium Conditions

pasek_simurda_christe_2006

pasek_simurda_orchard_christe_2008
A model of the guinea-pig ventricular cardiac myocyte incorporating a transverse-axial tubular system

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

perelson_kirschner_deboer_1993
Dynamics of HIV infection of CD4+ T cells

perelson_neumann_markowitz_leonard_ho_1996
HIV-1 dynamics in vivo: virion clearance rate, infected cell life-span, and viral generation time

peterson_riggs_2010

phillips_2007
A quantitative model of sleep-wake dynamics based on the physiology of the brainstem ascending arousal system

phillips_2008
Sleep deprivation in a quantitative physiologically based model of the ascending arousal system

pivonka_zimak_smith_gardiner_dunstan_sims_martin_mundy_2008
Model structure and control of bone remodeling: a theoretical study

plant_1981
Bifurcation and resonance in a model for bursting nerve cells

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
Mathematical model for the androgenic regulation of the prostate in intact and castrated adult male rats.

priebe_beuckelmann_1998
Simulation Study of Cellular Electrical Properties in Heart Failure

proctor_2005
Modelling the actions of chaperones and their role in ageing.

proctor_2007
An in silico model of the ubiquitin-proteasome system that incorporates normal homeostasis and age-related decline

puglisi_bers_2001
LabHEART: an interactive computer model of rabbit ventricular myocyte ion channels and Ca transport

purvis_butera_2005
Ionic Current Model of a Hypoglossal Motoneuron

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

qu_maclellan_weiss_2003
Dynamics of the Cell Cycle: Checkpoints, Sizers, and Timers

ralser_wamelink_kowald_gerisch_heeren_struys_klipp_jakobs_breitenbach_lehrach_krobitsch_2007
Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress

ramirez_nattel_courtemanche_2000
Mathematical analysis of canine atrial action potentials: rate, regional factors, and electrical remodeling

rangamani_2007
Survival and apoptotic pathways initiated by TNF-alpha: modeling and predictions

raposo_sobrinho_ferreira_2002
A minimal mathematical model of calcium homeostasis

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
Fighting a virus with a virus: a dynamic model for HIV-1 therapy

riccobene_omann_linderman_1999
Modeling Activation and Desensitisation of G-Protein Coupled Receptors Provides Insight into Ligand Efficacy

rice_jafri_winslow_2000
Modeling short-term 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
Comparison of putative cooperative mechanisms in cardiac muscle: length dependence and dynamic responses (model 1)

rice_winslow_jafri_1999
Modeling Gain and Gradedness of Ca2+ Release in the Functional Unit of the Cardiac Diadic Space

riemer_sobie_tung_1998
Stretch-induced changes in arrhythmogenesis and excitability in experimentally based heart cell models

rivlin_saunders_1951
Large Elastic Deformations of Isotropic Materials. VII. Experiments on the Deformation of Rubber

rogers_mcculloch_1994
A collocation--Galerkin finite element model of cardiac action potential propagation

romond_rustici_gonze_goldbeter_1999
Alternating Oscillations and Chaos in a Model of Two Coupled Biochemical Oscillators Driving Successive Phases of the Cell Cycle

rong_perelson_2009
Modeling latently infected cell activation: viral and latent reservoir persistence, and viral blips in HIV-infected patients on potent therapy

roux_noble_noble_marhl_2006
Modelling of calcium handling in airway myocytes

rubin_shevtsova_ermentrout_smith_rybak_2009
Multiple rhythmic states in a model of the respiratory central pattern generator

sachse_glanzel_seemann_2003
Modeling of 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 Levals of Cardiac Ryanodine Receptors

sakmann_spindler_bryant_linz_noble_2000
Distribution of a persistent sodium current across the ventricular wall in guinea pigs.

salem_saidel_stanley_cabrera_2002
Mechanistic Model of Myocardial Energy Metabolism Under Normal and Ischemic Conditions

sarai_matsuoka_kuratomi_ono_noma_2003
Role of individual ionic current systems in the SA node hypothesized by a model study

sarkar_lauffenburger_2003
Cell-Level Pharmacokinetic Model of Granulocyte Colony-Stimulating Factor: Implications for Ligand Lifetime and Potency in Vivo

saucerman_bers_2008

saucerman_brunton_michailova_mcculloch_2003
Modeling beta-adrenergic control of cardiac myocyte contractility in silico

saucerman_mcculloch_2004
Mechanistic systems models of cell signaling networks: a case study of myocyte adrenergic regulation

schenzle_1994
A model for AIDS pathogenesis

schlosser_selgrade_2000
A model of gonadotropin regulation during the menstrual cycle in women: qualitative features

schmid_nash_young_hunter_2006
Myocardial Material Parameter Estimation - A Comparative Study for Simple Shear

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

schoeberl_eichlerjonsson_gilles_muller_2002
Computational Modeling of the Dynamics of the MAP Kinase Cascade Activated by Surface and Internalized EGF Receptors.

schuster_beny_meister_2003
Modelling the electrophysiological endothelial cell response to bradykinin

sedaghat_sherman_quon_2002
A mathematical model of metabolic insulin signaling pathways

seemann_sachse_weib_dossel_2003
Quantitative Reconstruction of Cardiac Electromechanics in Human Myocardium: Regional Heterogeneity

shannon_wang_puglisi_weber_bers_2004
A Mathematical Treatment of Integrated Ca Dynamics within the Ventricular Myocyte

shaw_chase_starfinger_smith_hann_desaive_ghuysen_2007
Modeling the Cardiovascular System

shaw_rudy_1997
Electrophysiological effects of acute myocardial ischemia: a theoretical study of altered cell excitability and action potential duration

shi_hose_2009

shiferaw_watanabe_garfinkel_weiss_karma_2003
Model of Intracellular Calcium Cycling in Ventricular Myocytes

shim_leem_abe_noma_2006

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

shrestha_hollot_chipkin_schmitt_chait_2010
A mathematical model of parathyroid hormone response to acute changes in plasma ionized calcium concentration in humans

siebert_rode_herzog_till_blickhan_2008
Nonlinearities make a difference: comparison of two common Hill-type models with real muscle

skouibine_trayanova_moore_1999
Anode/cathode make and break phenomena in a model of defibrillation

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

smith_abdala_koizumi_rybak_paton_2007

smith_chase_nokes_shaw_wake_2004
Minimal haemodynamic system model including ventricular interaction and valve dynamics.

smith_crampin_2004
Development of models of active ion transport for whole-cell modelling: cardiac sodium-potassium pump as a case study

sneyd_dufour_2002
A dynamic model of the type-2 inositol triphosphate receptor

sneyd_tsaneva-atanasova_yule_thompson_shuttleworth_2004
Sneyd et al.'s 2004 mathematical model for Ca2+ oscillations and their control by membrane fluxes.

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

sneyd_wetton_charles_sanderson_1995
Intercellular calcium waves mediated by diffusion of inositol trisphosphate: a two-dimensional model

snyder_palmer_moore_2000
A Mathematical Model of Cardiocyte Ca2+ Dynamics with a Novel Representation of Sarcoplasmic Reticular Ca2+ Control

sobie_dilly_dossantoscruz_lederer_jafri_2002
Termination of Cardiac Ca2+ Sparks: An Investigative Mathematical Model of Calcium-Induced Calcium Release

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

sriram_bernot_kepes_2007
A minimal mathematical model combining several regulatory cycles from the budding yeast cell cycle

starbuck_wiley_lauffenburger_1990
Epidermal Growth Factor Binding and Trafficking Dynamics in Fibroblasts: Relationship to Cell Proliferation

stern_song_sham_yang_boheler_rios_1999
Local Control Models of Cardiac Excitation-Contraction Coupling A Possible Role for Allosteric Interactions between Ryanodine Receptors

stewart_aslanidi_noble_noble_boyett_zhang_2009
Mathematical models of the electrical action potential of Purkinje fibre cells

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
Analysis of a Model for the Pathogenesis of AIDS

surkis_peskin_tranchina_leonard_1998
Recovery of Cable Properties Through Active and Passive Modeling of Subthreshold Membrane Responses From Laterodorsal Tegmental Neurons

sveiczer_csikasznagy_gyorffy_tyson_novak_2000
Modeling the fission yeast cell cycle: quantized cycle times in wee1- cdc25Delta mutant cells.

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

swat_kel_herzel_2004

tabak_mascagni_bertram_2010
Mechanism for the Universal Pattern of Activity in Developing Neuronal Networks

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

teusink_passarge_reijenga_esgalhado_vanderweijden_schepper_walsh_bakker_vandam_westerhoff_snoep_2000
Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry.

tham_2008
A pharmacodynamic model for the time course of tumor shrinkage by gemcitabine + carboplatin in non-small cell lung cancer patients

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

thomsen_neubig_1989
Rapid kinetics of alpha 2-adrenergic inhibition of adenylate cyclase. Evidence for a distal rate-limiting step

tolic_mosekilde_sturis_2000
Modelling the Insulin-Glucose Feedback System: The Significance of Pulsatile Insulin Secretion

tomida_hirose_takizawa_shibasaki_iino_2003
NFAT functions as a working memory of Ca2+ signals in decoding Ca2+ oscillation

topp_promislow_devries_miura_finegood_2000
A Model of Beta-Cell Mass, Insulin, and Glucose Kinetics: Paythways to Diabetes

tran_2009
A metabolite-sensitive, thermodynamically-constrained model of cardiac cross-bridge cycling: Implications for force development during ischemia

tran_smith_loiselle_crampin_2009
A Thermodynamic Model of the Cardiac Sarcoplasmic/Endoplasmic Ca(2+) (SERCA) Pump

tyson_1991
Modeling 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
Robust oscillations within the interlocked feedback model of Drosophila circadian rhythm

vanbeek_2007
Adenine nucleotide-creatine-phosphate module in myocardial metabolic system explains fast phase of dynamic regulation of oxidative phosphorylation

vancapelle_durrer_1980
Computer simulation of arrhythmias in a network of coupled excitable elements

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 and Enhanced Ca2+ Signaling in GnRH-Secreting Neurons

vasalou_henson_2010
A multiscale model to investigate circadian rhythmicity of pacemaker neurons in the suprachiasmatic nucleus

vaseghi_baumeister_rizzi_reuss_1999
In Vivo Dynamics of 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
Regulation of mitochondrial respiration in heart cells analyzed by reaction-diffusion model of energy transfer

vilar_2006
Signal processing in the TGF-beta superfamily ligand-receptor network

vilar_kueh_barkai_leibler_2002
Mechanisms of noise-resistance in genetic oscillators

vinnakota_kemp_kushmerick_2006
Dynamics of Muscle Glycogenolysis Modeled with pH Time Course Computation and pH-Dependent Reaction Equilibria and Enzyme Kinetics

vinnakota_rusk_palmer_shankland_kushmerick_2010
Common Phenotype of Resting Mouse EDL and SOL Muscles: EDL

viswanathan_shaw_rudy_1999
Effects of IKr and IKs heterogeneity on action potential duration and its rate dependence: a simulation study (Midmyocardial Cell Model)

wanant_quon_2000
Insulin receptor binding kinetics: modeling and simulation studies

wang_cirit_haugh_2009
PI3K-dependent cross-talk interactions converge with Ras as quantifiable inputs integrated by Erk

wang_huang_huang_2006
A quantitative kinetic model for ATP-induced intracellular Ca2+ oscillations

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

wang_sobie_2008
Mathematical model of the neonatal mouse ventricular action potential

warashina_ogura_2004
Modeling of simulation-secretion coupling in a chromaffin cell

warren_tawhai_crampin_2009
Mathematical modelling of calcium wave propagation in mammalian airway epithelium: evidence for regenerative ATP release

waugh_sherratt_2006
Macrophage Dynamics in Diabetic Wound Healing

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

wein_damato_perelson_1998
Mathematical analysis of antiretroviral therapy aimed at HIV-1 eradication or maintenance of low viral loads

weinstein_1995

weinstein_1998
A mathematical model of the inner medullary collecting duct of the rat: acid/base transport

weinstein_2000
A mathematical model of the outer medullary collecting duct of the rat

westermark_lansner_2003

wierschem_bertram_2004
Complex bursting in pancreatic islets: a potential glycolytic mechanism

wilkins_sneyd_1998
Intercellular Spiral Waves of Calcium

winograd_destexhe_sanchezvives_2008
Hyperpolarization-activated graded persistent activity in the prefrontal cortex

winslow_rice_jafri_marban_ororke_1999
Mechanisms of Altered Excitation-Contraction Coupling in Canine Tachycardia-Induced Heart Failure, II Model Studies

wodarz_2003
Evolution of Immunological Memory and the Regulation of Competition between Pathogens

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
A dynamical perspective of CTL cross-priming and regulation: implications for cancer immunology

wodarz_nowak_1999
Specific therapy regimes could lead to long-term immunological control of HIV

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: a theoretical investigation

wolf_passarge_somsen_snoep_heinrich_westerhoff_2000
Transduction of Intracellular and Intercellular Dynamics in Yeast Glycolytic Oscillations

wolf_sohn_heinrich_kuriyama_2001
Mathematical analysis of a mechanism for autonomous metabolic oscillations in continuous culture of Saccharomyces cerevisae

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

yanagihara_1980
Reconstruction of sino-atrial node pacemaker potential based on the voltage clamp experiments

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

yang_tong_mccarver_hines_beard_2006
Population-Based Analysis of Methadone Distribution and Metabolism Using an Age-Dependent Physiologically Based Pharmacokinetic Model

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
Understanding the slow depletion of memory CD4+ T cells in HIV infection

yi_fogelson_keener_peskin_2003
A Mathematical Study of 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
Two Components of the Delayed Rectifier K+ Current in Ventricular Myocytes of the Guinea Pig Type

zhang_holden_kodama_honjo_lei_varghese_boyett_2000
Mathematical models of action potentials in the periphery and center of the rabbit sinoatrial node.

Model development and archiving support at physiome.org provided by the following grants: NIH/NIBIB BE08407 Software Integration, JSim and SBW 6/1/09-5/31/13; 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.