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dc.contributor.authorLiu, Ruirui
dc.contributor.authorHigley, Kathryn
dc.contributor.authorSwat, Maciej
dc.contributor.authorChaplain, Mark Andrew Joseph
dc.contributor.authorPowathil, Gibin
dc.contributor.authorGlazier, James
dc.date.accessioned2022-02-10T00:41:33Z
dc.date.available2022-02-10T00:41:33Z
dc.date.issued2021-02-10
dc.identifier272291218
dc.identifierea2fe428-bc00-40b8-b845-9c503f0c7a04
dc.identifier000616777800001
dc.identifier85101792905
dc.identifier.citationLiu , R , Higley , K , Swat , M , Chaplain , M A J , Powathil , G & Glazier , J 2021 , ' Development of a coupled simulation toolkit for computational radiation biology based on Geant4 and CompuCell3D ' , Physics in Medicine and Biology , vol. 66 , no. 4 , 045026 . https://doi.org/10.1088/1361-6560/abd4f9en
dc.identifier.issn0031-9155
dc.identifier.otherORCID: /0000-0001-5727-2160/work/86987089
dc.identifier.urihttps://hdl.handle.net/10023/24841
dc.descriptionRL acknowledges support from Consortium for Risk Evaluation and Stakeholder Participation (http://cresp.org). JAG acknowledges support from National Science Foundation grant NSF 1720625 and National Institutes of Health, National Institute of General Medical Sciences grants U01 GM111243 and R01 GM076692, JAG and MS acknowledge support from National Institutes of Health, National Institute of General Medical Sciences grant R01 GM122424.en
dc.description.abstractUnderstanding and designing clinical radiation therapy is one of the most important areas of state-of-the-art oncological treatment regimens. Decades of research have gone into developing sophisticated treatment devices and optimization protocols for schedules and dosages. In this paper, we presented a comprehensive computational platform that facilitates building of the sophisticated multi-cell-based model of how radiation affects the biology of living tissue. We designed and implemented a coupled simulation method, including a radiation transport model, and a cell biology model, to simulate the tumor response after irradiation. The radiation transport simulation was implemented through Geant4 which is an open-source Monte Carlo simulation platform that provides many flexibilities for users, as well as low energy DNA damage simulation physics, Geant4-DNA. The cell biology simulation was implemented using CompuCell3D (CC3D) which is a cell biology simulation platform. In order to couple Geant4 solver with CC3D, we developed a "bridging" module, RADCELL, that extracts tumor cellular geometry of the CC3D simulation (including specification of the individual cells) and ported it to the Geant4 for radiation transport simulation. The cell dose and cell DNA damage distribution in multicellular system were obtained using Geant4. The tumor response was simulated using cell-based tissue models based on CC3D, and the cell dose and cell DNA damage information were fed back through RADCELL to CC3D for updating the cell properties. By merging two powerful and widely used modeling platforms, CC3D and Geant4, we delivered a novel tool that can give us the ability to simulate the dynamics of biological tissue in the presence of ionizing radiation, which provides a framework for quantifying the biological consequences of radiation therapy. In this introductory methods paper, we described our modeling platform in detail and showed how it can be applied to study the application of radiotherapy to a vascularized tumor.
dc.format.extent20
dc.format.extent3361560
dc.language.isoeng
dc.relation.ispartofPhysics in Medicine and Biologyen
dc.subjectComputational radiation biologyen
dc.subjectGeant4en
dc.subjectCompuCell3Den
dc.subjectRADCELLen
dc.subjectCoupled simulationen
dc.subjectMicrobeam radiation therapyen
dc.subjectVascular tumour simulationen
dc.subjectQA Mathematicsen
dc.subjectQA75 Electronic computers. Computer scienceen
dc.subjectQH301 Biologyen
dc.subjectRC0254 Neoplasms. Tumors. Oncology (including Cancer)en
dc.subjectRM Therapeutics. Pharmacologyen
dc.subjectDASen
dc.subjectSDG 3 - Good Health and Well-beingen
dc.subject.lccQAen
dc.subject.lccQA75en
dc.subject.lccQH301en
dc.subject.lccRC0254en
dc.subject.lccRMen
dc.titleDevelopment of a coupled simulation toolkit for computational radiation biology based on Geant4 and CompuCell3Den
dc.typeJournal articleen
dc.contributor.institutionUniversity of St Andrews. School of Mathematics and Statisticsen
dc.contributor.institutionUniversity of St Andrews. Applied Mathematicsen
dc.identifier.doi10.1088/1361-6560/abd4f9
dc.description.statusPeer revieweden
dc.date.embargoedUntil2022-02-10


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