Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA

Sakata, D.; Hirayama, Ryoichi; Shin, Wook; Belli, M.; Tabocchini, Maria Antonella; Stewart, Robert D.; Belov, Oleg; Bernal, Mário; Bordage, Marie‐Claude; Brown, Jeremy M. C.; Dordevic, M.; Emfietzoglou, Dimitris; Francis, Z.; Guatelli, Susanna; Inaniwa, Taku; Ivanchenko, V. N.; Karamitros, Mathieu; Kyriakou, Ioanna; Lampe, Nathanael; Li, Zhuxin; Meylan, Sylvain; Michelet, Claire; Nieminen, P.; Perrot, Y.; Petrović, Ivan; Ramos-Méndez, Jose; Ristić-Fira, Aleksandra; Santin, G.; Schuemann, Jan; Tran, Hoang Ngoc; Villagrasa, C.; Incerti, S.

doi:10.1016/j.ejmp.2022.11.012

Cited by 12 publications

(3 citation statements)

References 53 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This allows for estimation of different biological endpoints, including DSB repair, misrepair, induction of mutation and chromosome aberration and cell survival. A very recent publication presented a Geant4-DNA extension implementing a feature for the prediction of DNA rejoining kinetics and cell survival in time after irradiation for a Chinese hamster V79 cell line [228]. There the two lesion kinetics (TLK) model was implemented and successfully applied together with an optimized parameter set to predict DNA repair kinetics and cell survival.…”

Section: Dna Repair Mechanismsmentioning

confidence: 99%

Accessing radiation damage to biomolecules on the nanoscale by particle-scattering simulations

Hahn

2023

J. Phys. Commun.

View full text Add to dashboard Cite

Radiation damage to DNA plays a central role in radiation therapy to cure cancer. The physico-chemical and biological processes involved encompass huge time and spatial scales. To obtain a comprehensive understanding on the nano and the macro scale is a very challenging tasks for experimental techniques alone. Therefore particle-scattering simulations are often applied to complement measurements and aide their interpretation, to help in the planning of experiments, to predict their outcome and to test damage models. In the last years, powerful multipurpose particle-scattering framework based on the Monte-Carlo simulation (MCS) method, such as Geant4 and Geant4-DNA, were extended by user friendly interfaces such as TOPAS and TOPAS-nBio. This shifts their applicability from the realm of dedicated specialists to a broader range of scientists. In the present review we aim to give an overview over MCS based approaches to understand radiation interaction on a broad scale, ranging from cancerous tissue, cells and their organelles including the nucleus, mitochondria and membranes, over radiosensitizer such as metallic nanoparticles, and water with additional radical scavenger, down to isolated biomolecules in the form of DNA, RNA, proteins and DNA-protein complexes. Hereby the degradation of biomolecules by direct damage from inelastic scattering processes during the physical stage, and the indirect damage caused by radicals during the chemical stage as well as some parts of the early biological response is covered. Due to their high abundance the action of hydroxyl radicals (•OH) and secondary low energy electrons (LEE) as well as prehydrated electrons are covered in additional detail. Applications in the prediction of DNA damage, DNA repair processes, cell survival and apoptosis, influence of radiosensitizer on the dose distribution within cells an their organelles, the study of linear-energy-transfer (LET), the relative-biological-effectiveness (RBE), ion-beam cancer-therapy, microbeam-radiation-therapy (MRT), the FLASH effect, and the radiation induced bystander effect are reviewed.

show abstract

Section: Dna Repair Mechanismsmentioning

confidence: 99%

Accessing radiation damage to biomolecules on the nanoscale by particle-scattering simulations

Hahn

2023

J. Phys. Commun.

View full text Add to dashboard Cite

show abstract

“…Development of the Geant4-DNA platform for radiobiological applications included incorporation of a feature allowing for prediction of DNA rejoining kinetics and corresponding cell surviving fraction as a function of time. By coupling Geant4-DNA evaluations of DNA damage to the Two Lesion Kinetic Model (Stewart, 2001), distinguishing broadly between simple and complex initial DNA damage, Sakata et al (2023) modeled the link between mechanistic physical/chemical damage processes, DNA repair, and cell survival.…”

Section: Applications Of Stochastic Characteristics Of Radiation Inte...mentioning

confidence: 99%

ICRU Report 98, Stochastic Nature of Radiation Interactions: Microdosimetry

Braby,

Conte,

Dingfelder

et al. 2023

J�ICRU

View full text Add to dashboard Cite

The Journal of the ICRU publishes reports on important and topical subjects within the field of radiation science and measurement. It is the successor to the series of reports published by or on behalf of the International Commission on Radiation Units and Measurements (ICRU) since 1927. The Commission continually reviews radiation science with the aim of identifying areas where the development of guidance and recommendations can make an important contribution.

show abstract

“…This public version of "molecularDNA", based on a non-public prototype by Lampe et al, 26,27 has been significantly upgraded from its previous development iterations. [28][29][30][31][32][33][34] In particular, it includes the new chemistry model (Synchronous Independent Reaction Time model, socalled "IRT-sync"), 35 the "G4EmDNAChemistry_option3" Geant4-DNA chemistry list based on Plante and Devroye, 36 as well as an upgrade of computational tools to estimate DNA damage response (DDR), such as repair kinetics and survival probability of cells. In addition, in this study, simulation results are benchmarked against results available in the literature.…”

Section: Introductionmentioning

confidence: 99%

Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application

Chatzipapas

Tran

Dordevic³

et al. 2023

Precision Radiation Oncology

Self Cite

View full text Add to dashboard Cite

Purpose:The scientific community shows great interest in the study of DNA damage induction, DNA damage repair, and the biological effects on cells and cellular systems after exposure to ionizing radiation. Several in silico methods have been proposed so far to study these mechanisms using Monte Carlo simulations. This study outlines a Geant4-DNA example application, named "molecularDNA", publicly released in the 11.1 version of Geant4 (December 2022).Methods: It was developed for novice Geant4 users and requires only a basic understanding of scripting languages to get started. The example includes two different DNA-scale geometries of biological targets, namely "cylinders" and "human cell". This public version is based on a previous prototype and includes new features, such as: the adoption of a new approach for the modeling of the chemical stage, the use of the standard DNA damage format to describe radiation-induced DNA damage, and upgraded computational tools to estimate DNA damage response.Results: Simulation data in terms of single-strand break and double-strand break yields were produced using each of the available geometries. The results were compared with the literature, to validate the example, producing less than 5% difference in all cases.Conclusion: "molecularDNA" is a prototype tool that can be applied in a wide variety of radiobiology studies, providing the scientific community with an open-access base for DNA damage quantification calculations. New DNA and cell geometries for the "molecularDNA" example will be included in future versions of Geant4-DNA.

show abstract

Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA

Cited by 12 publications

References 53 publications

Accessing radiation damage to biomolecules on the nanoscale by particle-scattering simulations

Accessing radiation damage to biomolecules on the nanoscale by particle-scattering simulations

ICRU Report 98, Stochastic Nature of Radiation Interactions: Microdosimetry

Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application

Contact Info

Product

Resources

About