|
a) Calcium Based
|
Bio models ID |
| Ryanodine receptor adaptation and Ca2+(-) induced Ca2+ release-dependent Ca2+ oscillations |
BIOMD0000000060 |
| Complex calcium oscillations and the role of mitochondria and cytosolic proteins |
BIOMD0000000039 |
| Complex intracellular calcium oscillations A theoretical exploration of possible mechanisms |
BIOMD0000000043 |
| Ca-independent phospholipase A2-dependent sustained Rho-kinase activation exhibits all-or-none response |
BIOMD0000000088 |
| A theoretical study of effects of cytosolic Ca2+ oscillations on activation of glycogen phosphorylase |
BIOMD0000000100 |
| Protein phosphorylation driven by intracellular calcium oscillations: a kinetic analysis |
BIOMD0000000113 |
| Hormone-induced calcium oscillations in liver cells can be explained by a simple one pool model. |
BIOMD0000000114 |
| Hormone-induced calcium oscillations in liver cells can be explained by a simple one pool model. |
BIOMD0000000114 |
| Hormone-induced calcium oscillations in liver cells can be explained by a simple one pool model. |
BIOMD0000000115 |
| Signal-induced Ca2+ oscillations: properties of a model based on Ca(2+)-induced Ca2+ release |
BIOMD0000000117 |
| A quantitative kinetic model for ATP-induced intracellular Ca2+ oscillations |
BIOMD0000000145 |
| Modeling and analysis of calcium signaling events leading to long-term depression in cerebellar Purkinje cells |
BIOMD0000000162 |
| A theoretical study on activation of transcription factor modulated by intracellular Ca2+ oscillations |
BIOMD0000000166 |
| A mathematical model of spontaneous calcium (II) oscillations in astrocytes |
BIOMD0000000184 |
| Dynamic simulation of the effect of calcium-release activated calcium channel on cytoplasmic Ca2+ oscillation |
BIOMD0000000202 |
| Calcium spiking |
BIOMD0000000224 |
| Switching from simple to complex oscillations in calcium signaling |
BIOMD0000000329 |
| On the encoding and decoding of calcium signals in hepatocytes |
BIOMD0000000331 |
| Complex intracellular calcium oscillations A theoretical exploration of possible mechanisms |
BIOMD0000000043 |
| A bifurcation analysis of two coupled calcium oscillators |
BIOMD0000000058 |
| Modeling of Ca2+ flux in pancreatic beta-cells: role of the plasma membrane and intracellular stores |
|
| Effects of extracellular calcium on electrical bursting and intracellular and luminal calcium oscillations in insulin |
BIOMD0000000371 |
| Parallel adaptive feedback enhances reliability of the Ca2+ signaling system |
BIOMD0000000354 |
| A role for calcium release-activated current (CRAC) in cholinergic modulation of electrical activity in pancreatic beta-cells |
BIOMD0000000374 |
| Modeling of bone formation and resorption mediated by parathyroid hormone: response to estrogen/PTH therapy. |
BIOMD0000000274 |
| A mathematical model of parathyroid hormone response to acute changes in plasma ionized calcium concentration in humans. |
BIOMD0000000276 |
| A dynamic model of interactions of Ca2+, calmodulin, and catalytic subunits of Ca2+/calmodulin-dependent protein kinase I |
MODEL1001150000 |
| Mathematical modelling of calcium wave propagation in mammalian airway epithelium: evidence for regenerative ATP release. |
MODEL1006230018 |
| Metabotropic receptor activation, desensitization and sequestration-I: modelling calcium and inositol 1,4,5-trisphosphate dynamics following receptor activation. |
MODEL1006230039 |
| A model of the single atrial cell: relation between calcium current and calcium release. |
MODEL1006230070 |
| Minimal model of beta-cell mitochondrial Ca2+ handling. |
MODEL1201140004 |
| The role of sodium-calcium exchange during the cardiac action potential. |
MODEL1006230073 |
| Riluzole-induced block of voltage-gated Na+ current and activation of BKCa channels in cultured differentiated human skeletal muscle cells. |
MODEL7817907010 |
|
b) Energy Metabolism
|
Biomodels ID |
| Creatine kinase in energy metabolic signalling in muscle |
BIOMD0000000041 |
| Mitochondrial energetic metabolism: a simplified model of TCA cycle with ATP production |
BIOMD0000000232 |
| Diethyl pyrocarbonate, a histidine-modifying agent, directly stimulates activity of ATP-sensitive potassium channels in pituitary GH(3) cells |
BIOMD0000000124 |
| Cooperation and competition in the evolution of ATP-producing pathway |
BIOMD0000000337 |
| The control systems structures of energy metabolism. |
MODEL1006230010 |
| An integrative dynamic model of brain energy metabolism using in vivo neurochemical measurements. |
MODEL1006230041 |
| Dynamics of muscle glycogenolysis modeled with pH time course computation and pH-dependent reaction equilibria and enzyme kinetics. |
MODEL1006230049 |
| Computer modeling of mitochondrial tricarboxylic acid cycle, oxidative phosphorylation, metabolite transport, and electrophysiology. |
MODEL1006230090 |
| Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism. |
MODEL1009150002 |
| A metabolic model of the mitochondrion and its use in modelling diseases of the tricarboxylic acid cycle. |
MODEL1106160000 |
| A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. |
MODEL1111070003 |
| An old paper revisited: "a mathematical model of carbohydrate energy metabolism. Interaction between glycolysis, the Krebs cycle and the H-transporting shuttles at varying ATPases load" |
MODEL1202170000 |
| Reconstruction of Danio rerio metabolic model accounting for subcellular compartmentalisation. |
MODEL1204120000 |
| CardioNet: a human metabolic network suited for the study of cardiomyocyte metabolism. |
MODEL1212040000 |
| The Edinburgh human metabolic network reconstruction and its functional analysis. |
MODEL2021729243 |
| A biophysical model of the mitochondrial respiratory system and oxidative phosphorylation. |
MODEL4151491057 |
| Global reconstruction of the human metabolic network based on genomic and bibliomic data. |
MODEL6399676120 |
| A computational model for glycogenolysis in skeletal muscle. |
MODEL6623617994 |
| A community-driven global reconstruction of human metabolism. |
MODEL1109130000 |
|
c) Protein Related
|
Biomodels ID |
| Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades |
BIOMD0000000026 |
| GSK3 and p53 - is there a link in Alzheimer's disease? |
BIOMD0000000286 |
| Modelling the role of the hsp70/hsp90 system in the maintenance of protein homeostasis |
BIOMD0000000344 |
| An in silico model of the ubiquitin-proteasome system that incorporates normal homeostasis and age-related decline |
BIOMD0000000105 |
| Scaffold proteins may biphasically affect the levels of mitogen-activated protein kinase signaling and reduce its threshold properties |
BIOMD0000000011 |
| Genome-scale metabolic modeling elucidates the role of proliferative adaptation in causing the Warburg effect. |
MODEL1105100000 |
|
d) Antioxidant/Reactive oxidant Species
|
Biomodels ID |
| Alternative pathways as mechanism for the negative effects associated with overexpression of superoxide dismutase |
BIOMD0000000108 |
| Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress |
BIOMD0000000247 |
| Mechanism of protection of peroxidase activity by oscillatory dynamics |
BIOMD0000000046 |
| A mathematical model of glutathione metabolism. |
BIOMD0000000268 |
|
e) Glucose/Insulin
|
Biomodels ID |
| A mathematical model of metabolic insulin signaling pathways |
BIOMD0000000137 |
| Systems-level interactions between insulin-EGF networks amplify mitogenic signaling |
BIOMD0000000223 |
| A model of phosphofructokinase and glycolytic oscillations in the pancreatic beta-cell. |
BIOMD0000000225 |
| A kinetic core model of the glucose-stimulated insulin secretion network of pancreatic beta cells |
BIOMD0000000239 |
| Mathematical modeling and analysis of insulin clearance in vivo |
BIOMD0000000345 |
| A model of beta-cell mass, insulin, and glucose kinetics: pathways to diabetes |
BIOMD0000000341 |
| Glucose sensing in the pancreatic beta cell: a computational systems analysis |
BIOMD0000000348 |
| Mass and information feedbacks through receptor endocytosis govern insulin signaling as revealed using a parameter-free modeling framework |
BIOMD0000000343 |
| A Hierarchical Whole-body Modeling Approach Elucidates the Link between in Vitro Insulin Signaling and in vivo Glucose Homeostasis |
BIOMD0000000356 |
| Modeling the insulin-glucose feedback system: the significance of pulsatile insulin secretion |
BIOMD0000000372 |
| Computer model for mechanisms underlying ultradian oscillations of insulin and glucose |
BIOMD0000000382 |
| Calcium and glycolysis mediate multiple bursting modes in pancreatic islets. |
BIOMD0000000373 |
| The phantom burster model for pancreatic beta-cells |
BIOMD0000000377 |
| Sustained oscillations in glycolysis: an experimental and theoretical study of chaotic and complex periodic behavior and of quenching of simple oscillations |
BIOMD0000000042 |
| Meal simulation model of the glucose-insulin system. |
BIOMD0000000379 |
| Harmonic oscillator model of the insulin and IGF1 receptors' allosteric binding and activation. |
MODEL1112050000 |
| A molecular mathematical model of glucose mobilization and uptake. |
MODEL1112050001 |
| The Feedback Control of Glucose: On the road to type II diabetes |
MODEL1112110000 |
| Pancreatic network control of glucagon secretion and counterregulation. |
MODEL1112110002 |
| Mathematical models of diabetes progression. |
MODEL1112110003 |
| An integrated model for glucose and insulin regulation in healthy volunteers and type 2 diabetic patients following intravenous glucose provocations. |
MODEL1112110004 |
| Effect of Na/Ca exchange on plateau fraction and [Ca]i in models for bursting in pancreatic beta-cells. |
MODEL1201070000 |
| Diffusion induced oscillatory insulin secretion. |
MODEL1201140001 |
| Modeling insulin kinetics: responses to a single oral glucose administration or ambulatory-fed conditions. |
MODEL1201140002 |
| Insulin receptor binding kinetics: modeling and simulation studies. |
MODEL1201140005 |
| Temporal coding of insulin action through multiplexing of the AKT pathway. |
MODEL1204060000 |
| Kinetic modeling of human hepatic glucose metabolism in type 2 diabetes mellitus predicts higher risk of hypoglycemic events in rigorous insulin therapy. |
MODEL1209260000 |
| Folate/Methionine Metablism |
Biomodels ID |
| A mathematical model of the folate cycle: new insights into folate homeostasis |
BIOMD0000000213 |
| Folate cycle kinetics in human breast cancer cells |
BIOMD0000000018 |
| A mathematical model of the methionine cycle. |
MODEL1006230091 |
| In silico experimentation with a model of hepatic mitochondrial folate metabolism. |
MODEL1007200000 |
| A mathematical model of the folate cycle: new insights into folate homeostasis. |
MODEL6655501972 |
| Lipid Metabolism |
|
| A whole-body mathematical model of cholesterol metabolism and its age-associated dysregulation. |
BIOMD0000000434 |
| An integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis. |
BIOMD0000000436 |
| Dynamical modeling of the cholesterol regulatory pathway with Boolean networks. |
MODEL0568648427 |
*Search conducted May 2013- Version 24 of Biomodels released December 2012