PhysiPKPD: A pharmacokinetics and pharmacodynamics module for PhysiCell

Daniel Bergman; Lauren Marazzi; Mukti Chowkwale; Deepa Maheshvare M; Supriya Bidanta; Tarunendu Mapder; Jialun Li

doi:10.46471/gigabyte.72

PhysiPKPD: A pharmacokinetics and pharmacodynamics module for PhysiCell

GigaByte. 2022 Nov 30:2022:gigabyte72. doi: 10.46471/gigabyte.72. eCollection 2022.

Authors

Daniel Bergman¹, Lauren Marazzi², Mukti Chowkwale³, Deepa Maheshvare M⁴, Supriya Bidanta⁵, Tarunendu Mapder⁶, Jialun Li⁷

Affiliations

¹ Department of Mathematics, University of Michigan, Ann Arbor, MI 48109, USA.
² Center for Quantitative Medicine, University of Connecticut School of Medicine, Farmington, CT 06030, USA.
³ Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22908, USA.
⁴ Department of Computational and Data Sciences, Indian Institute of Science, Bengaluru 560012, India.
⁵ Indiana University, Bloomington, IN 47405, USA.
⁶ Quantitative Systems Pharmacology, Bristol-Myers Squibb, Princeton Lawrenceville, NJ, USA.
⁷ McGill University, Montréal, QC H3A 0G4, Canada.

Abstract

Pharmacokinetics and pharmacodynamics (PKPD) are key considerations in any study of molecular therapies. It is thus imperative to factor their effects into any in silico model of biological tissue involving such therapies. Furthermore, creating a standardized and flexible framework will benefit the community by increasing access to such modules and enhancing their communicability. PhysiCell is an open-source physics-based cell simulator, i.e., a platform for modeling biological tissue, that is quickly being adopted and utilized by the mathematical biology community. We present here PhysiPKPD, an open-source PhysiCell-based package that allows users to include PKPD in PhysiCell models.

Availability & implementation: The source code for PhysiPKPD is located here: https://github.com/drbergman/PhysiPKPD.