Investigating optimal chemotherapy options for osteosarcoma patients through a data-driven mathematical model
All tumors are unique, so they might respond differently to the same treatment. In this work, we develop a mathematical model of the interactions between key players in osteosarcoma microenvironment and the most common chemotherapy drugs in three clusters of tumors with distinct immune compositions. We then study the behaviors of cells and cytokines in the tumor microenvironment under the effects of chemotherapy, investigate the responses in each cluster to different treatment regimens and various treatment start times, as well as suggest optimal dosages for tumors of each cluster.
This repository contains the following scripts:
qspmodel.py: python classes and methods for Mathematical model of immune response in osteosarcoma.
chemo_qspmodel.py: python classes and methods for Mathematical model of osteosarcoma microenvironment with chemotherapy drugs.
MAP_dynamics.ipynb: python notebook for analysis and plotting of dynamics of osteosarcoma microenvironment with MAP treatment.
sensitivity_analysis.ipynb: python notebook for sensitivity analysis of chemotherapy-related parameters.
chemo_resistant_dynamics.ipynb: python notebook for analysis and plotting of dynamics of osteosarcoma microenvironment with MAP treatment when cancer cells are resistant to certain chemotherapy drugs.
vary_start_treatment.ipynb: python notebook for analysis and plotting of dynamics of osteosarcoma microenvironment under MAP treatment with different treatment start times.
different_treatment_regimens.ipynb: python notebook for analysis and plotting of dynamics of osteosarcoma microenvironment with different treatment regimens.
optimal_dosage.ipynb: python notebook for optimization of MAP dosages and plotting of dynamics of osteosarcoma microenvironment with the optimal dosages.
All data sets needed to run the code are in 'input' folder.
If using any parts of this code please cite: Le, T; Su, S; Shahriyari, L. Investigating optimal chemotherapy options for osteosarcoma patients through a mathematical model. Submitted, 2021.