Comparing stochastic differential equations and agent-based modelling and simulation for early-stage cancer

Figueredo, Grazziela P.; Siebers, Peer-Olaf; Owen, Markus R.; Reps, Jenna; Aickelin, Uwe

Abstract

There is great potential to be explored regarding the use of agent-based modelling and simulation as an alternative paradigm to investigate early-stage cancer interactions with the immune system. It does not suffer from some limitations of ordinary differential equation models, such as the lack of stochasticity, representation of individual behaviours rather than aggregates and individual memory. In this paper we investigate the potential contribution of agent-based modelling and simulation when contrasted with stochastic versions of ODE models using early-stage cancer examples. We seek answers to the following questions: (1) Does this new stochastic formulation produce similar results to the agent-based version? (2) Can these methods be used interchangeably? (3) Do agent-based models outcomes reveal any benefit when compared to the Gillespie results? To answer these research questions we investigate three well-established mathematical models describing interactions between tumour cells and immune elements. These case studies were re-conceptualised under an agent-based perspective and also converted to the Gillespie algorithm formulation. Our interest in this work, therefore, is to establish a methodological discussion regarding the usability of different simulation approaches, rather than provide further biological insights into the investigated case studies. Our results show that it is possible to obtain equivalent models that implement the same mechanisms; however, the incapacity of the Gillespie algorithm to retain individual memory of past events affects the similarity of some results. Furthermore, the emergent behaviour of ABMS produces extra patters of behaviour in the system, which was not obtained by the Gillespie algorithm.

Citation

Figueredo, G. P., Siebers, P.-O., Owen, M. R., Reps, J., & Aickelin, U. (2014). Comparing stochastic differential equations and agent-based modelling and simulation for early-stage cancer. PLoS ONE, 9(4), Article e95150. https://doi.org/10.1371/journal.pone.0095150

• Journal Article Type: Article
• Publication Date: Jan 1, 2014
• Deposit Date: Sep 26, 2014
• Publicly Available Date: Sep 26, 2014
• Journal: PLoS ONE
• Electronic ISSN: 1932-6203
• Publisher: Public Library of Science
• Peer Reviewed: Peer Reviewed
• Volume: 9
• Issue: 4
• Article Number: e95150
• DOI: https://doi.org/10.1371/journal.pone.0095150
• Keywords: Biomedical Informatics, Simulation
• Public URL: https://nottingham-repository.worktribe.com/output/997380
• Publisher URL: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0095150