A parameter sensitivity study for simulating DNA damage after proton irradiation using TOPAS-nBio
- 26 February 2020
- journal article
- research article
- Published by IOP Publishing in Physics in Medicine & Biology
- Vol. 65 (8), 085015
- https://doi.org/10.1088/1361-6560/ab7a6b
Abstract
Monte Carlo (MC) track structure simulation tools are commonly used for predicting radiation induced DNA damage by modeling the physical and chemical reactions at the nanometer scale. However, the outcome of these MC simulations is particularly sensitive to the adopted parameters which vary significantly across studies. In this study, a previously developed full model of nuclear DNA was used to describe the DNA geometry. The TOPAS-nBio MC toolkit was used to investigate the impact of physics and chemistry models as well as three key parameters (the energy threshold for direct damage, the chemical stage time length, and the probability of damage between hydroxyl radical reactions with DNA) on the induction of DNA damage. Our results show that the difference in physics and chemistry models alone can cause differences up to 34% and 16% in the DNA double strand break (DSB) yield, respectively. Additionally, changing the direct damage threshold, chemical stage length, and hydroxyl damage probability can cause differences of up to 26%, 51%, and 71% in predicted DSB yields, respectively, for the configurations in this study.Keywords
Funding Information
- National Cancer Institute (R01 CA187003)
This publication has 43 references indexed in Scilit:
- Diffusion-controlled reactions modeling in Geant4-DNAJournal of Computational Physics, 2014
- Inelastic Cross Sections for Low-Energy Electrons in Liquid Water: Exchange and Correlation EffectsRadiation Research, 2013
- TOPAS: An innovative proton Monte Carlo platform for research and clinical applicationsMedical Physics, 2012
- A model of the cell nucleus for DNA damage calculationsInternational Journal of Radiation Biology, 2011
- Track structures, DNA targets and radiation effects in the biophysical Monte Carlo simulation code PARTRACMutation research. Reviews in mutation research, 2011
- Comparison of GEANT4 very low energy cross section models with experimental data in waterMedical Physics, 2010
- THE GEANT4-DNA PROJECTInternational Journal of Modeling, Simulation, and Scientific Computing, 2010
- Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human GenomeScience, 2009
- Track-structure codes in radiation researchRadiation Measurements, 2006
- DNA DSB induced in human cells by charged particles and gamma rays: Experimental results and theoretical approachesInternational Journal of Radiation Biology, 2005