# Indiana University

 dc.contributor.author Andasari, V. en dc.contributor.author Roper, R.T. en dc.contributor.author Swat, M.H. en dc.contributor.author Chaplain, M.A.J. en dc.date.accessioned 2014-08-06T18:46:06Z en dc.date.available 2014-08-06T18:46:06Z en dc.date.issued 2012 en dc.identifier.citation Andasari V, Roper RT, Swat MH, Chaplain MAJ (2012) Integrating Intracellular Dynamics Using CompuCell3D and Bionetsolver: Applications to Multiscale Modelling of Cancer Cell Growth and Invasion. PLoS ONE 7(3): e33726. doi:10.1371/journal.pone.0033726 en dc.identifier.uri http://hdl.handle.net/2022/18554 dc.description.abstract In this paper we present a multiscale, individual-based simulation environment that integrates CompuCell3D for lattice-based modelling on the cellular level and Bionetsolver for intracellular modelling. CompuCell3D or CC3D provides an implementation of the lattice-based Cellular Potts Model or CPM (also known as the Glazier-Graner-Hogeweg or GGH model) and a Monte Carlo method based on the metropolis algorithm for system evolution. The integration of CC3D for cellular systems with Bionetsolver for subcellular systems enables us to develop a multiscale mathematical model and to study the evolution of cell behaviour due to the dynamics inside of the cells, capturing aspects of cell behaviour and interaction that is not possible using continuum approaches. We then apply this multiscale modelling technique to a model of cancer growth and invasion, based on a previously published model of Ramis-Conde et al. (2008) where individual cell behaviour is driven by a molecular network describing the dynamics of E-cadherin and $\beta$-catenin. In this model, which we refer to as the centre-based model, an alternative individual-based modelling technique was used, namely, a lattice-free approach. In many respects, the GGH or CPM methodology and the approach of the centre-based model have the same overall goal, that is to mimic behaviours and interactions of biological cells. Although the mathematical foundations and computational implementations of the two approaches are very different, the results of the presented simulations are compatible with each other, suggesting that by using individual-based approaches we can formulate a natural way of describing complex multi-cell, multiscale models. The ability to easily reproduce results of one modelling approach using an alternative approach is also essential from a model cross-validation standpoint and also helps to identify any modelling artefacts specific to a given computational approach. en dc.language.iso en_US en dc.publisher Public Library of Science en dc.relation.isversionof https://doi.org/10.1371/journal.pone.0033726 en dc.rights © 2012 Andasari et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. en dc.rights.uri http://creativecommons.org/licenses/by-sa/3.0/ en dc.subject beta catenin en dc.subject uvomorulin en dc.subject cadherin en dc.subject algorithm en dc.subject article en dc.subject cancer cell en dc.subject cancer growth en dc.subject cancer invasion en dc.subject cell adhesion en dc.subject cell function en dc.subject computer prediction en dc.subject computer program en dc.subject controlled study en dc.subject information processing en dc.subject intermethod comparison en dc.subject mathematical model en dc.subject Monte Carlo method en dc.subject simulation en dc.subject animal en dc.subject biological model en dc.subject cell proliferation en dc.subject computer simulation en dc.subject human en dc.subject metabolism en dc.subject multicellular spheroid en dc.subject neoplasm en dc.subject pathology en dc.subject Animals en dc.subject beta Catenin en dc.subject Cadherins en dc.subject Cell Proliferation en dc.subject Computer Simulation en dc.subject Humans en dc.subject Models, Biological en dc.subject Monte Carlo Method en dc.subject Neoplasm Invasiveness en dc.subject Neoplasms en dc.subject Spheroids, Cellular en dc.title Integrating intracellular dynamics using CompuCell3D and bionetsolver: Applications to multiscale modelling of cancer cell growth and invasion en dc.type Article en
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