Geometrical structures for radiation biology research as implemented in the TOPAS-nBio toolkit.
Kirkby, Karen J
AffiliationDepartment of Radiation Oncology, Massachusetts General Hospital, Harvard Medical School, 30 Fruit St, Boston, MA 02114
MetadataShow full item record
AbstractComputational simulations, such as Monte Carlo track structure simulations, offer a powerful tool for quantitatively investigating radiation interactions within cells. The modelling of the spatial distribution of energy deposition events as well as diffusion of chemical free radical species, within realistic biological geometries, can help provide a comprehensive understanding of the effects of radiation on cells. Track structure simulations, however, generally require advanced computing skills to implement. The TOPAS-nBio toolkit, an extension to TOPAS (TOol for PArticle Simulation), aims to provide users with a comprehensive framework for radiobiology simulations, without the need for advanced computing skills. This includes providing users with an extensive library of advanced, realistic, biological geometries ranging from the micrometer scale (e.g. cells and organelles) down to the nanometer scale (e.g. DNA molecules and proteins). Here we present the geometries available in TOPAS-nBio.
CitationGeometrical structures for radiation biology research as implemented in the TOPAS-nBio toolkit. 2018, 63(17): 175018 Phys Med Biol
JournalPhysics in Medicine and Biology
- TOPAS-nBio: An Extension to the TOPAS Simulation Toolkit for Cellular and Sub-cellular Radiobiology.
- Authors: Schuemann J, McNamara AL, Ramos-Méndez J, Perl J, Held KD, Paganetti H, Incerti S, Faddegon B
- Issue date: 2019 Feb
- Validation of the radiobiology toolkit TOPAS-nBio in simple DNA geometries.
- Authors: McNamara A, Geng C, Turner R, Mendez JR, Perl J, Held K, Faddegon B, Paganetti H, Schuemann J
- Issue date: 2017 Jan
- Monte Carlo simulation of chemistry following radiolysis with TOPAS-nBio.
- Authors: Ramos-Méndez J, Perl J, Schuemann J, McNamara A, Paganetti H, Faddegon B
- Issue date: 2018 May 17
- SU-E-T-475: Nano-Dosimetric Track Structure Scoring including Biological Modeling with TOPAS-NBio.
- Authors: Schuemann J
- Issue date: 2012 Jun
- Monte Carlo Processing on a Chip (MCoaC)-preliminary experiments toward the realization of optimal-hardware for TOPAS/Geant4 to drive discovery.
- Authors: Abhyankar YS, Dev S, Sarun OS, Saxena A, Joshi R, Darbari H, Sajish C, Sonavane UB, Gavane V, Deshpande A, Dixit T, Harsh R, Badwe R, Rath GK, Laskar S, Faddegon B, Perl J, Paganetti H, Schuemann J, Srivastava A, Obcemea C, Nath AK, Sharma A, Buchsbaum J
- Issue date: 2019 Aug