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
Table 1: Human Nutrition themed models archived in Bio models*.