WholeBodyModel_FinalModel

This project presents an enhanced whole-body model by Carstensen et al. The particular focus for the enhancmets are lipid absorption, lipid dynamics and adipose tissue physiology. A recreation of the Carstensen et al. can be found here: https://github.com/AnneRossen/WholeBodyModel_BaseModel.

Key Enhancements

• Revised Gastrointestinal (GI) Sub-model
  Incorporates lymphatic fat absorption, enabling physiologically accurate simulation of postprandial lipid transport.
• Anatomically Distinct Adipose Compartments
  Separates upper-body and lower-body fat depots to capture regional differences in lipid storage and mobilization.
• Expanded Lipid Pathway Resolution
  Improves representation of plasma triglyceride (TG), free fatty acid (FFA), and chylomicron kinetics across fasting and feeding states.
• Metabolic Heterogeneity Support
  Enables simulation of different body compositions (e.g., top-heavy, bottom-heavy), insulin resistance, and obesity-related dysfunctions.

Program structure

• data/ – All parameters are saved in excel files in this data folder
• Main.py – Main simulation script
• LoadParameters.py – Script defining parameter class p
• production_rates.py – Script defining reaction rate function
• differential_equations.py – Script defining ODE system
• plot_save_results – Script defining plotting function
• digitalisation.py – Script that consist of extracted and digitalisaed data points using atomiris

How to run

1. Ensure all required Python are installed. Allapckages are listen at the top in Main.py.
2. Execute Main.py to run the simulation and generate output plots.

Reference

Carstensen PE, Bendsen J, Reenberg AT, Ritschel TKS, Jørgensen JB.
A whole-body multi-scale mathematical model for dynamic simulation of the metabolism in man.
IFAC-PapersOnLine, 2022. DOI: 10.1016/j.ifacol.2023.01.015