Interagency Modeling and Analysis Group

Compartmental Modeling Tutorial

-- Introductory Discussion

-- Tracers: Compartmental vs PDE Tutorial

-- Introductory Discussion

-- One Compartment

-- Two Compartments

-- Osmotic Exchange

-- Higher Order

-- Pharmacology

-- Tracers: Compartmental vs PDE Tutorial

One Compartment

-- Comp1 with Decay

Expanded version

-- Comp1 with Flow and Decay

-- Comp1 with Reaction

-- Comp1 with Flow and Reaction

-- Comp1 with Flow and two Reactions

-- Comp1 with Flow

Expanded version

Two Compartments

-- Comp2 with Exchange

-- Comp2 with Exchange and Binding

-- Comp2 with Exchange and Reaction

-- Comp2 with Flow and Exchange (With example data fit)

-- Comp2 with Flow, Exchange, and Reaction

-- Comp2 with Flow and MM Exchange reaction (Michaelis-Menten-type conductance)

-- Comp2 with Flow: fit to MRI Contrast data (Gd-induced water signal)

-- Cortisol secretion: Feedback control of precursor to cortisol and its adrenal secretion.

-- Transport of one solute

-- Transport of two solutes (Countertransport)

Osmotic Exchange

-- Uncoupled 2 solute Osmotic exchange (Independent paths for solute and water)

-- Uncoupled 2 solute Osmotic exchange with column heights for pressure measurement

-- Porous transporter (Permeation hindrance in cylindrical pore)

-- 1 solute, coupled KK exchange (Interaction sol-water: Kedem Katchalsky)

Higher Order

-- Three Compartment with flow (Capillary-ISF-Tissue Exchange)

-- 2-Organ capillary-tissue recirculation and clearance

-- Six Compartment with Recirc (Recirculation with blood-tissue exchange)

-- CTEX10: One Compartment Tissue Exchange (Flow via N tanks in series, a PDE approximation)

-- CTEX20: Two Compartment (Flow through N tanks, exchange with tissue)

-- CTEX20b: Capillary-tissue exchange through diffusion and a saturable transporter

-- CTEX20: Multipath (Heterogeneous Flow through 5 CTEX20 units in parallel)

Pharmacology

-- Three summed exponential decay reactions (fit to data)

-- Six Compartment: Propofol Kinetics (i.v. -> tissue)

-- Aspirin Clearance (Saturation kinetics of metabolism)

-- Indocyanine Clearance in the Liver

-- Biochemical Reactions

-- Three state, two progressive reactions (Reactions in series, no enzyme)

-- Three state, two progressive MM reactions (Michaelis-Menton reactions in series)

-- Three state, two progressive Enzymatic reactions (Enzymatic reaction in series)

Model development and archiving support at https://www.imagwiki.nibib.nih.gov/physiome provided by the following grants: NIH U01HL122199 Analyzing the Cardiac Power Grid, 09/15/2015 - 05/31/2020, 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.