DNA damage modeled with Geant4-DNA: effects of plasmid DNA conformation and experimental conditions

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61389005%3A_____%2F21%3A00551756" target="_blank" >RIV/61389005:_____/21:00551756 - isvavai.cz</a>

Result on the web

<a href="https://doi.org/10.1088/1361-6560/ac3a22" target="_blank" >https://doi.org/10.1088/1361-6560/ac3a22</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1088/1361-6560/ac3a22" target="_blank" >10.1088/1361-6560/ac3a22</a>

Result language

angličtina

Original language name

DNA damage modeled with Geant4-DNA: effects of plasmid DNA conformation and experimental conditions

Original language description

The chemical stage of the Monte Carlo track-structure (MCTS) code Geant4-DNA was extended for its use in DNA strand break (SB) simulations and compared against published experimental data. Geant4-DNA simulations were performed using pUC19 plasmids (2686 base pairs) in a buffered solution of DMSO irradiated by Co-60 or Cs-137 gamma-rays. A comprehensive evaluation of SSB yields was performed considering DMSO, DNA concentration, dose and plasmid supercoiling. The latter was measured using the super helix density value used in a Brownian dynamics plasmid generation algorithm. The Geant4-DNA implementation of the independent reaction times method (IRT), developed to simulate the reaction kinetics of radiochemical species, allowed to score the fraction of supercoiled, relaxed and linearized plasmid fractions as a function of the absorbed dose. The percentage of the number of SB after center dot OH + DNA and H center dot + DNA reactions, referred as SSB efficiency, obtained using MCTS were 13.77% and 0.74% respectively. This is in reasonable agreement with published values of 12% and 0.8%. The SSB yields as a function of DMSO concentration, DNA concentration and super helix density recreated the expected published experimental behaviors within 5%, one standard deviation. The dose response of SSB and DSB yields agreed with published measurements within 5%, one standard deviation. We demonstrated that the developed extension of IRT in Geant4-DNA, facilitated the reproduction of experimental conditions. Furthermore, its calculations were strongly in agreement with experimental data. These two facts will facilitate the use of this extension in future radiobiological applications, aiding the study of DNA damage mechanisms with a high level of detail.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

—

OECD FORD branch

30224 - Radiology, nuclear medicine and medical imaging

Project

—

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2021

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Physics in Medicine and Biology

ISSN

0031-9155

e-ISSN

1361-6560

Volume of the periodical

66

Issue of the periodical within the volume

24

Country of publishing house

GB - UNITED KINGDOM

Number of pages

12

Pages from-to

245017

UT code for WoS article

000730640300001

EID of the result in the Scopus database

2-s2.0-85122513957