TY  - JOUR
AU  - Đorđević, Miloš
AU  - Fattori, Serena
AU  - Petringa, Giada
AU  - Ristić Fira, Aleksandra
AU  - Petrović, Ivan
AU  - Cuttone, Giacomo
AU  - Cirrone, G.A. Pablo
PY  - 2024
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/12241
AB  - Purpose: The use of Monte Carlo (MC) simulations capable of reproducing radiobiological effects of ionising radiation on human cell lines is of great importance, especially for cases involving protons and heavier ion beams. In the latter, huge uncertainties can arise mainly related to the effects of the secondary particles produced in the beam-tissue interaction. This paper reports on a detailed MC study performed using Geant4-based approach on three cancer cell lines, the HTB-177, CRL-5876 and MCF-7, that were previously irradiated with therapeutic proton and carbon ion beams. Methods: A Geant4-based approach used jointly with analytical calculations has been developed to provide a more realistic estimation of the radiobiological damage produced by proton and carbon beams in tissues, reproducing available data obtained from in vitro cell irradiations. The MC “Hadrontherapy” Geant4 application and the Local Effect Model: LEM I, LEM II and LEM III coupled with the different numerical approaches: RapidRusso (RR) and RapidScholz (RS) were used in the study. Results: Experimental survival curves are compared with those evaluated using the highlighted Geant4 MC-based approach via chi-square statistical analysis, for the combinations of radiobiological models and numerical approaches, as outlined above. Conclusion: This study has presented a comparison of the survival data from MC simulations to experimental survival data for three cancer cell lines. An overall best level of agreement was obtained for the HTB-177 cells.
T2  - Physica Medica
T1  - Computational approaches in the estimation of radiobiological damage for human-malignant cells irradiated with clinical proton and carbon beams
VL  - 117
SP  - 103189
DO  - 10.1016/j.ejmp.2023.103189
ER  - 

@article{
author = "Đorđević, Miloš and Fattori, Serena and Petringa, Giada and Ristić Fira, Aleksandra and Petrović, Ivan and Cuttone, Giacomo and Cirrone, G.A. Pablo",
year = "2024",
abstract = "Purpose: The use of Monte Carlo (MC) simulations capable of reproducing radiobiological effects of ionising radiation on human cell lines is of great importance, especially for cases involving protons and heavier ion beams. In the latter, huge uncertainties can arise mainly related to the effects of the secondary particles produced in the beam-tissue interaction. This paper reports on a detailed MC study performed using Geant4-based approach on three cancer cell lines, the HTB-177, CRL-5876 and MCF-7, that were previously irradiated with therapeutic proton and carbon ion beams. Methods: A Geant4-based approach used jointly with analytical calculations has been developed to provide a more realistic estimation of the radiobiological damage produced by proton and carbon beams in tissues, reproducing available data obtained from in vitro cell irradiations. The MC “Hadrontherapy” Geant4 application and the Local Effect Model: LEM I, LEM II and LEM III coupled with the different numerical approaches: RapidRusso (RR) and RapidScholz (RS) were used in the study. Results: Experimental survival curves are compared with those evaluated using the highlighted Geant4 MC-based approach via chi-square statistical analysis, for the combinations of radiobiological models and numerical approaches, as outlined above. Conclusion: This study has presented a comparison of the survival data from MC simulations to experimental survival data for three cancer cell lines. An overall best level of agreement was obtained for the HTB-177 cells.",
journal = "Physica Medica",
title = "Computational approaches in the estimation of radiobiological damage for human-malignant cells irradiated with clinical proton and carbon beams",
volume = "117",
pages = "103189",
doi = "10.1016/j.ejmp.2023.103189"
}

Đorđević, M., Fattori, S., Petringa, G., Ristić Fira, A., Petrović, I., Cuttone, G.,& Cirrone, G.A. P.. (2024). Computational approaches in the estimation of radiobiological damage for human-malignant cells irradiated with clinical proton and carbon beams. in Physica Medica, 117, 103189.
https://doi.org/10.1016/j.ejmp.2023.103189

Đorđević M, Fattori S, Petringa G, Ristić Fira A, Petrović I, Cuttone G, Cirrone GP. Computational approaches in the estimation of radiobiological damage for human-malignant cells irradiated with clinical proton and carbon beams. in Physica Medica. 2024;117:103189.
doi:10.1016/j.ejmp.2023.103189 .

Đorđević, Miloš, Fattori, Serena, Petringa, Giada, Ristić Fira, Aleksandra, Petrović, Ivan, Cuttone, Giacomo, Cirrone, G.A. Pablo, "Computational approaches in the estimation of radiobiological damage for human-malignant cells irradiated with clinical proton and carbon beams" in Physica Medica, 117 (2024):103189,
https://doi.org/10.1016/j.ejmp.2023.103189 . .

TY  - JOUR
AU  - Chatzipapas, Konstantinos P.
AU  - Tran, Ngoc Hoang
AU  - Đorđević, Miloš
AU  - Živković, Sara
AU  - Zein, Sara
AU  - Shin, Wook‐Geun
AU  - Sakata, Dousatsu
AU  - Lampe, Nathanael
AU  - Brown, Jeremy M. C.
AU  - Ristić‐Fira, Aleksandra
AU  - Petrović, Ivan
AU  - Kyriakou, Ioanna
AU  - Emfietzoglou, Dimitris
AU  - Guatelli, Susanna
AU  - Incerti, Sébastien
PY  - 2023
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/12968
AB  - Purpose:ThescientificcommunityshowsgreatinterestinthestudyofDNAdamageinduction,DNAdamagerepair,andthebiologicaleffectsoncellsandcellularsystemsafterexposuretoionizingradiation.Severalin silicomethodshavebeenproposedsofar to study these mechanisms using Monte Carlo simulations. This study outlinesaGeant4-DNAexampleapplication,named“molecularDNA”,publiclyreleasedinthe11.1versionofGeant4(December2022).Methods:ItwasdevelopedfornoviceGeant4usersandrequiresonlyabasicunder-standing of scripting languages to get started. The example includes two differentDNA-scalegeometriesofbiologicaltargets,namely“cylinders”and“humancell”.Thispublicversionisbasedonapreviousprototypeandincludesnewfeatures,suchas:theadoptionofanewapproachforthemodelingofthechemicalstage,theuseofthestan-dardDNAdamageformattodescriberadiation-inducedDNAdamage,andupgradedcomputationaltoolstoestimateDNAdamageresponse.Results:Simulationdataintermsofsingle-strandbreakanddouble-strandbreakyieldswereproducedusingeachoftheavailablegeometries.Theresultswerecomparedwiththeliterature,tovalidatetheexample,producinglessthan5%differenceinallcases.Conclusion:“molecularDNA”isaprototypetoolthatcanbeappliedinawidevarietyofradiobiologystudies,providingthescientificcommunitywithanopen-accessbasefor DNA damage quantification calculations. New DNA and cell geometries for the“molecularDNA”examplewillbeincludedinfutureversionsofGeant4-DNA.
T2  - Precision Radiation Oncology
T1  - Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application
VL  - 7
IS  - 1
SP  - 4
EP  - 14
DO  - 10.1002/pro6.1186
ER  - 

@article{
author = "Chatzipapas, Konstantinos P. and Tran, Ngoc Hoang and Đorđević, Miloš and Živković, Sara and Zein, Sara and Shin, Wook‐Geun and Sakata, Dousatsu and Lampe, Nathanael and Brown, Jeremy M. C. and Ristić‐Fira, Aleksandra and Petrović, Ivan and Kyriakou, Ioanna and Emfietzoglou, Dimitris and Guatelli, Susanna and Incerti, Sébastien",
year = "2023",
abstract = "Purpose:ThescientificcommunityshowsgreatinterestinthestudyofDNAdamageinduction,DNAdamagerepair,andthebiologicaleffectsoncellsandcellularsystemsafterexposuretoionizingradiation.Severalin silicomethodshavebeenproposedsofar to study these mechanisms using Monte Carlo simulations. This study outlinesaGeant4-DNAexampleapplication,named“molecularDNA”,publiclyreleasedinthe11.1versionofGeant4(December2022).Methods:ItwasdevelopedfornoviceGeant4usersandrequiresonlyabasicunder-standing of scripting languages to get started. The example includes two differentDNA-scalegeometriesofbiologicaltargets,namely“cylinders”and“humancell”.Thispublicversionisbasedonapreviousprototypeandincludesnewfeatures,suchas:theadoptionofanewapproachforthemodelingofthechemicalstage,theuseofthestan-dardDNAdamageformattodescriberadiation-inducedDNAdamage,andupgradedcomputationaltoolstoestimateDNAdamageresponse.Results:Simulationdataintermsofsingle-strandbreakanddouble-strandbreakyieldswereproducedusingeachoftheavailablegeometries.Theresultswerecomparedwiththeliterature,tovalidatetheexample,producinglessthan5%differenceinallcases.Conclusion:“molecularDNA”isaprototypetoolthatcanbeappliedinawidevarietyofradiobiologystudies,providingthescientificcommunitywithanopen-accessbasefor DNA damage quantification calculations. New DNA and cell geometries for the“molecularDNA”examplewillbeincludedinfutureversionsofGeant4-DNA.",
journal = "Precision Radiation Oncology",
title = "Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application",
volume = "7",
number = "1",
pages = "4-14",
doi = "10.1002/pro6.1186"
}

Chatzipapas, K. P., Tran, N. H., Đorđević, M., Živković, S., Zein, S., Shin, W., Sakata, D., Lampe, N., Brown, J. M. C., Ristić‐Fira, A., Petrović, I., Kyriakou, I., Emfietzoglou, D., Guatelli, S.,& Incerti, S.. (2023). Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application. in Precision Radiation Oncology, 7(1), 4-14.
https://doi.org/10.1002/pro6.1186

Chatzipapas KP, Tran NH, Đorđević M, Živković S, Zein S, Shin W, Sakata D, Lampe N, Brown JMC, Ristić‐Fira A, Petrović I, Kyriakou I, Emfietzoglou D, Guatelli S, Incerti S. Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application. in Precision Radiation Oncology. 2023;7(1):4-14.
doi:10.1002/pro6.1186 .

Chatzipapas, Konstantinos P., Tran, Ngoc Hoang, Đorđević, Miloš, Živković, Sara, Zein, Sara, Shin, Wook‐Geun, Sakata, Dousatsu, Lampe, Nathanael, Brown, Jeremy M. C., Ristić‐Fira, Aleksandra, Petrović, Ivan, Kyriakou, Ioanna, Emfietzoglou, Dimitris, Guatelli, Susanna, Incerti, Sébastien, "Simulation of DNA damage using Geant4‐DNA: an overview of the “molecularDNA” example application" in Precision Radiation Oncology, 7, no. 1 (2023):4-14,
https://doi.org/10.1002/pro6.1186 . .

TY  - JOUR
AU  - Chatzipapas, Konstantinos P.
AU  - Tran, Ngoc Hoang
AU  - Đorđević, Miloš
AU  - Živković, Sara
AU  - Zein, Sara
AU  - Shin, Wook-Geun
AU  - Sakata, Dousatsu
AU  - Lampe, Nathanael
AU  - Brown, Jeremy M. C.
AU  - Ristić-Fira, Aleksandra
AU  - Petrović, Ivan M.
AU  - Kyriakou, Ioanna
AU  - Emfietzoglou, Dimitris
AU  - Guatelli, Susanna
AU  - Incerti, Sebastien
PY  - 2023
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/10661
AB  - 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.
T2  - Precision Radiation Oncology
T1  - Simulation of DNA damage using Geant4-DNA: an overview of the “molecularDNA” example application
VL  - 7
IS  - 1
SP  - 4
EP  - 14
DO  - 10.1002/pro6.1186
ER  - 

@article{
author = "Chatzipapas, Konstantinos P. and Tran, Ngoc Hoang and Đorđević, Miloš and Živković, Sara and Zein, Sara and Shin, Wook-Geun and Sakata, Dousatsu and Lampe, Nathanael and Brown, Jeremy M. C. and Ristić-Fira, Aleksandra and Petrović, Ivan M. and Kyriakou, Ioanna and Emfietzoglou, Dimitris and Guatelli, Susanna and Incerti, Sebastien",
year = "2023",
abstract = "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.",
journal = "Precision Radiation Oncology",
title = "Simulation of DNA damage using Geant4-DNA: an overview of the “molecularDNA” example application",
volume = "7",
number = "1",
pages = "4-14",
doi = "10.1002/pro6.1186"
}

Chatzipapas, K. P., Tran, N. H., Đorđević, M., Živković, S., Zein, S., Shin, W., Sakata, D., Lampe, N., Brown, J. M. C., Ristić-Fira, A., Petrović, I. M., Kyriakou, I., Emfietzoglou, D., Guatelli, S.,& Incerti, S.. (2023). Simulation of DNA damage using Geant4-DNA: an overview of the “molecularDNA” example application. in Precision Radiation Oncology, 7(1), 4-14.
https://doi.org/10.1002/pro6.1186

Chatzipapas KP, Tran NH, Đorđević M, Živković S, Zein S, Shin W, Sakata D, Lampe N, Brown JMC, Ristić-Fira A, Petrović IM, Kyriakou I, Emfietzoglou D, Guatelli S, Incerti S. Simulation of DNA damage using Geant4-DNA: an overview of the “molecularDNA” example application. in Precision Radiation Oncology. 2023;7(1):4-14.
doi:10.1002/pro6.1186 .

Chatzipapas, Konstantinos P., Tran, Ngoc Hoang, Đorđević, Miloš, Živković, Sara, Zein, Sara, Shin, Wook-Geun, Sakata, Dousatsu, Lampe, Nathanael, Brown, Jeremy M. C., Ristić-Fira, Aleksandra, Petrović, Ivan M., Kyriakou, Ioanna, Emfietzoglou, Dimitris, Guatelli, Susanna, Incerti, Sebastien, "Simulation of DNA damage using Geant4-DNA: an overview of the “molecularDNA” example application" in Precision Radiation Oncology, 7, no. 1 (2023):4-14,
https://doi.org/10.1002/pro6.1186 . .

TY  - CONF
AU  - Đorđević, Miloš
AU  - Chatzipapas, Konstantinos
AU  - Hoang Tran, Ngoc
AU  - Sakata, Dousatsu
AU  - Petrović, Ivan
AU  - Ristić-Fira, Aleksandra
AU  - Zein, Sara
AU  - Brown, Jeremy M.C.
AU  - Kyriakou, Ioanna
AU  - Emfietzoglou, Dimitris
AU  - Guatelli, Susanna
AU  - Incerti, Sebastien
PY  - 2023
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/12658
AB  - The scientific community has a large interest in the studies of DNA damage and response after exposure to ionizing radiation. Several in-silico methods have been proposed so far to model and study the mechanisms of DNA damage using Monte Carlo simulations. The “molecularDNA” example is one of the most recent applications to simulate the irradiation of human cancer cells and bacteria using Geant4-DNA. This example enables the simulation of the physical, physico-chemical and chemical stages of liquid water irradiation, including radiolytic processes following the particle irradiation of the pre-defined human cell geometries and it can be used to calculate the early direct and non-direct DNA damage such as single (SSB) and double strand breaks (DSB) as well as DNA fragment distribution. The application is user friendly and can be used following simple macro commands. The results of the Monte Carlo simulation are compared to experimental data of DSB yields, as well as with previously published simulation data.
PB  - Kragujevac : Institute for Information Technologies, University of Kragujevac
C3  - ICCBIKG 2023 : 2nd International Conference on Chemo and Bioinformatics : Book of Proceedings
T1  - Simulation of DNA damage using the “molecularDNA” example application of Geant4-DNA
SP  - 144
EP  - 147
DO  - 10.46793/ICCBI23.144D
ER  - 

@conference{
author = "Đorđević, Miloš and Chatzipapas, Konstantinos and Hoang Tran, Ngoc and Sakata, Dousatsu and Petrović, Ivan and Ristić-Fira, Aleksandra and Zein, Sara and Brown, Jeremy M.C. and Kyriakou, Ioanna and Emfietzoglou, Dimitris and Guatelli, Susanna and Incerti, Sebastien",
year = "2023",
abstract = "The scientific community has a large interest in the studies of DNA damage and response after exposure to ionizing radiation. Several in-silico methods have been proposed so far to model and study the mechanisms of DNA damage using Monte Carlo simulations. The “molecularDNA” example is one of the most recent applications to simulate the irradiation of human cancer cells and bacteria using Geant4-DNA. This example enables the simulation of the physical, physico-chemical and chemical stages of liquid water irradiation, including radiolytic processes following the particle irradiation of the pre-defined human cell geometries and it can be used to calculate the early direct and non-direct DNA damage such as single (SSB) and double strand breaks (DSB) as well as DNA fragment distribution. The application is user friendly and can be used following simple macro commands. The results of the Monte Carlo simulation are compared to experimental data of DSB yields, as well as with previously published simulation data.",
publisher = "Kragujevac : Institute for Information Technologies, University of Kragujevac",
journal = "ICCBIKG 2023 : 2nd International Conference on Chemo and Bioinformatics : Book of Proceedings",
title = "Simulation of DNA damage using the “molecularDNA” example application of Geant4-DNA",
pages = "144-147",
doi = "10.46793/ICCBI23.144D"
}

Đorđević, M., Chatzipapas, K., Hoang Tran, N., Sakata, D., Petrović, I., Ristić-Fira, A., Zein, S., Brown, J. M.C., Kyriakou, I., Emfietzoglou, D., Guatelli, S.,& Incerti, S.. (2023). Simulation of DNA damage using the “molecularDNA” example application of Geant4-DNA. in ICCBIKG 2023 : 2nd International Conference on Chemo and Bioinformatics : Book of Proceedings
Kragujevac : Institute for Information Technologies, University of Kragujevac., 144-147.
https://doi.org/10.46793/ICCBI23.144D

Đorđević M, Chatzipapas K, Hoang Tran N, Sakata D, Petrović I, Ristić-Fira A, Zein S, Brown JM, Kyriakou I, Emfietzoglou D, Guatelli S, Incerti S. Simulation of DNA damage using the “molecularDNA” example application of Geant4-DNA. in ICCBIKG 2023 : 2nd International Conference on Chemo and Bioinformatics : Book of Proceedings. 2023;:144-147.
doi:10.46793/ICCBI23.144D .

Đorđević, Miloš, Chatzipapas, Konstantinos, Hoang Tran, Ngoc, Sakata, Dousatsu, Petrović, Ivan, Ristić-Fira, Aleksandra, Zein, Sara, Brown, Jeremy M.C., Kyriakou, Ioanna, Emfietzoglou, Dimitris, Guatelli, Susanna, Incerti, Sebastien, "Simulation of DNA damage using the “molecularDNA” example application of Geant4-DNA" in ICCBIKG 2023 : 2nd International Conference on Chemo and Bioinformatics : Book of Proceedings (2023):144-147,
https://doi.org/10.46793/ICCBI23.144D . .

TY  - JOUR
AU  - Sakata, Dousatsu
AU  - Hirayama, Ryoichi
AU  - Shin, Wook-Geun
AU  - Belli, Mauro
AU  - Tabocchini, Maria A
AU  - Stewart, Robert D
AU  - Belov, Oleg
AU  - Bernal, Mario A
AU  - Bordage, Marie-Claude
AU  - Brown, Jeremy M.C.
AU  - Đorđević, Miloš
AU  - Emfietzoglou, Dimitris
AU  - Francis, Ziad
AU  - Guatelli, Susanna
AU  - Inaniwa, Taku
AU  - Ivanchenko, Vladimir
AU  - Karamitros, Mathieu
AU  - Kyriakou, Ioanna
AU  - Lampe, Nathanael
AU  - Li, Zhuxin
AU  - Meylan, Sylvain
AU  - Michelet, Claire
AU  - Nieminen, Petteri
AU  - Perrot, Yann
AU  - Petrović, Ivan M.
AU  - Ramos-Mendez, Jose
AU  - Ristić-Fira, Aleksandra
AU  - Santin, Giovanni
AU  - Schuemann, Jan
AU  - Tran, Hoang N
AU  - Villagrasa, Carmen
AU  - Incerti, Sebastien
PY  - 2023
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/10573
AB  - Purpose: Track structure Monte Carlo (MC) codes have achieved successful outcomes in the quantitative investigation of radiation-induced initial DNA damage. The aim of the present study is to extend a Geant4-DNA radiobiological application by incorporating a feature allowing for the prediction of DNA rejoining kinetics and corresponding cell surviving fraction along time after irradiation, for a Chinese hamster V79 cell line, which is one of the most popular and widely investigated cell lines in radiobiology. Methods: We implemented the Two-Lesion Kinetics (TLK) model, originally proposed by Stewart, which allows for simulations to calculate residual DNA damage and surviving fraction along time via the number of initial DNA damage and its complexity as inputs. Results: By optimizing the model parameters of the TLK model in accordance to the experimental data on V79, we were able to predict both DNA rejoining kinetics at low linear energy transfers (LET) and cell surviving fraction. Conclusion: This is the first study to demonstrate the implementation of both the cell surviving fraction and the DNA rejoining kinetics with the estimated initial DNA damage, in a realistic cell geometrical model simulated by full track structure MC simulations at DNA level and for various LET. These simulation and model make the link between mechanistic physical/chemical damage processes and these two specific biological endpoints.
T2  - Physica Medica
T1  - Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA
VL  - 105
SP  - 102508
DO  - 10.1016/j.ejmp.2022.11.012
ER  - 

@article{
author = "Sakata, Dousatsu and Hirayama, Ryoichi and Shin, Wook-Geun and Belli, Mauro and Tabocchini, Maria A and Stewart, Robert D and Belov, Oleg and Bernal, Mario A and Bordage, Marie-Claude and Brown, Jeremy M.C. and Đorđević, Miloš and Emfietzoglou, Dimitris and Francis, Ziad and Guatelli, Susanna and Inaniwa, Taku and Ivanchenko, Vladimir and Karamitros, Mathieu and Kyriakou, Ioanna and Lampe, Nathanael and Li, Zhuxin and Meylan, Sylvain and Michelet, Claire and Nieminen, Petteri and Perrot, Yann and Petrović, Ivan M. and Ramos-Mendez, Jose and Ristić-Fira, Aleksandra and Santin, Giovanni and Schuemann, Jan and Tran, Hoang N and Villagrasa, Carmen and Incerti, Sebastien",
year = "2023",
abstract = "Purpose: Track structure Monte Carlo (MC) codes have achieved successful outcomes in the quantitative investigation of radiation-induced initial DNA damage. The aim of the present study is to extend a Geant4-DNA radiobiological application by incorporating a feature allowing for the prediction of DNA rejoining kinetics and corresponding cell surviving fraction along time after irradiation, for a Chinese hamster V79 cell line, which is one of the most popular and widely investigated cell lines in radiobiology. Methods: We implemented the Two-Lesion Kinetics (TLK) model, originally proposed by Stewart, which allows for simulations to calculate residual DNA damage and surviving fraction along time via the number of initial DNA damage and its complexity as inputs. Results: By optimizing the model parameters of the TLK model in accordance to the experimental data on V79, we were able to predict both DNA rejoining kinetics at low linear energy transfers (LET) and cell surviving fraction. Conclusion: This is the first study to demonstrate the implementation of both the cell surviving fraction and the DNA rejoining kinetics with the estimated initial DNA damage, in a realistic cell geometrical model simulated by full track structure MC simulations at DNA level and for various LET. These simulation and model make the link between mechanistic physical/chemical damage processes and these two specific biological endpoints.",
journal = "Physica Medica",
title = "Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA",
volume = "105",
pages = "102508",
doi = "10.1016/j.ejmp.2022.11.012"
}

Sakata, D., Hirayama, R., Shin, W., Belli, M., Tabocchini, M. A., Stewart, R. D., Belov, O., Bernal, M. A., Bordage, M., Brown, J. M.C., Đorđević, M., Emfietzoglou, D., Francis, Z., Guatelli, S., Inaniwa, T., Ivanchenko, V., Karamitros, M., Kyriakou, I., Lampe, N., Li, Z., Meylan, S., Michelet, C., Nieminen, P., Perrot, Y., Petrović, I. M., Ramos-Mendez, J., Ristić-Fira, A., Santin, G., Schuemann, J., Tran, H. N., Villagrasa, C.,& Incerti, S.. (2023). Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA. in Physica Medica, 105, 102508.
https://doi.org/10.1016/j.ejmp.2022.11.012

Sakata D, Hirayama R, Shin W, Belli M, Tabocchini MA, Stewart RD, Belov O, Bernal MA, Bordage M, Brown JM, Đorđević M, Emfietzoglou D, Francis Z, Guatelli S, Inaniwa T, Ivanchenko V, Karamitros M, Kyriakou I, Lampe N, Li Z, Meylan S, Michelet C, Nieminen P, Perrot Y, Petrović IM, Ramos-Mendez J, Ristić-Fira A, Santin G, Schuemann J, Tran HN, Villagrasa C, Incerti S. Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA. in Physica Medica. 2023;105:102508.
doi:10.1016/j.ejmp.2022.11.012 .

Sakata, Dousatsu, Hirayama, Ryoichi, Shin, Wook-Geun, Belli, Mauro, Tabocchini, Maria A, Stewart, Robert D, Belov, Oleg, Bernal, Mario A, Bordage, Marie-Claude, Brown, Jeremy M.C., Đorđević, Miloš, Emfietzoglou, Dimitris, Francis, Ziad, Guatelli, Susanna, Inaniwa, Taku, Ivanchenko, Vladimir, Karamitros, Mathieu, Kyriakou, Ioanna, Lampe, Nathanael, Li, Zhuxin, Meylan, Sylvain, Michelet, Claire, Nieminen, Petteri, Perrot, Yann, Petrović, Ivan M., Ramos-Mendez, Jose, Ristić-Fira, Aleksandra, Santin, Giovanni, Schuemann, Jan, Tran, Hoang N, Villagrasa, Carmen, Incerti, Sebastien, "Prediction of DNA rejoining kinetics and cell survival after proton irradiation for V79 cells using Geant4-DNA" in Physica Medica, 105 (2023):102508,
https://doi.org/10.1016/j.ejmp.2022.11.012 . .

TY  - JOUR
AU  - Chatzipapas, Konstantinos
AU  - Đorđević, Miloš
AU  - Živković, Sara
AU  - Tran, Ngoc Hoang
AU  - Lampe, Nathanael
AU  - Sakata, Dousatsu
AU  - Petrović, Ivan
AU  - Ristić-Fira, Aleksandra
AU  - Shin, Wook-Geun
AU  - Zein, Sara
AU  - Brown, Jeremy M.C.
AU  - Kyriakou, Ioanna
AU  - Emfietzoglou, Dimitris
AU  - Guatelli, Susanna
AU  - Incerti, Sebastien
PY  - 2023
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/11202
AB  - Purpose: This study aimed to develop a computational environment for the accurate simulation of human cancer cell irradiation using Geant4-DNA. New cell geometrical models were developed and irradiated by alpha particle beams to induce DNA damage. The proposed approach may help further investigation of the benefits of external alpha irradiation therapy. Methods: The Geant4-DNA Monte Carlo (MC) toolkit allows the simulation of cancer cell geometries that can be combined with accurate modelling of physical, physicochemical and chemical stages of liquid water irradiation, including radiolytic processes. Geant4-DNA is used to calculate direct and non-direct DNA damage yields, such as single and double strand breaks, produced by the deposition of energy or by the interaction of DNA with free radicals. Results: In this study, the “molecularDNA” example application of Geant4-DNA was used to quantify early DNA damage in human cancer cells upon irradiation with alpha particle beams, as a function of linear energy transfer (LET). The MC simulation results are compared to experimental data, as well as previously published simulation data. The simulation results agree well with the experimental data on DSB yields in the lower LET range, while the experimental data on DSB yields are lower than the results obtained with the “molecularDNA” example in the higher LET range. Conclusion: This study explored and demonstrated the possibilities of the Geant4-DNA toolkit together with the “molecularDNA” example to simulate the helium beam irradiation of cancer cell lines, to quantify the early DNA damage, or even the following DNA damage response. © 2023 Associazione Italiana di Fisica Medica e Sanitaria
T2  - Physica Medica
T1  - Geant4-DNA simulation of human cancer cells irradiation with helium ion beams
VL  - 112
DO  - 10.1016/j.ejmp.2023.102613
ER  - 

@article{
author = "Chatzipapas, Konstantinos and Đorđević, Miloš and Živković, Sara and Tran, Ngoc Hoang and Lampe, Nathanael and Sakata, Dousatsu and Petrović, Ivan and Ristić-Fira, Aleksandra and Shin, Wook-Geun and Zein, Sara and Brown, Jeremy M.C. and Kyriakou, Ioanna and Emfietzoglou, Dimitris and Guatelli, Susanna and Incerti, Sebastien",
year = "2023",
abstract = "Purpose: This study aimed to develop a computational environment for the accurate simulation of human cancer cell irradiation using Geant4-DNA. New cell geometrical models were developed and irradiated by alpha particle beams to induce DNA damage. The proposed approach may help further investigation of the benefits of external alpha irradiation therapy. Methods: The Geant4-DNA Monte Carlo (MC) toolkit allows the simulation of cancer cell geometries that can be combined with accurate modelling of physical, physicochemical and chemical stages of liquid water irradiation, including radiolytic processes. Geant4-DNA is used to calculate direct and non-direct DNA damage yields, such as single and double strand breaks, produced by the deposition of energy or by the interaction of DNA with free radicals. Results: In this study, the “molecularDNA” example application of Geant4-DNA was used to quantify early DNA damage in human cancer cells upon irradiation with alpha particle beams, as a function of linear energy transfer (LET). The MC simulation results are compared to experimental data, as well as previously published simulation data. The simulation results agree well with the experimental data on DSB yields in the lower LET range, while the experimental data on DSB yields are lower than the results obtained with the “molecularDNA” example in the higher LET range. Conclusion: This study explored and demonstrated the possibilities of the Geant4-DNA toolkit together with the “molecularDNA” example to simulate the helium beam irradiation of cancer cell lines, to quantify the early DNA damage, or even the following DNA damage response. © 2023 Associazione Italiana di Fisica Medica e Sanitaria",
journal = "Physica Medica",
title = "Geant4-DNA simulation of human cancer cells irradiation with helium ion beams",
volume = "112",
doi = "10.1016/j.ejmp.2023.102613"
}

Chatzipapas, K., Đorđević, M., Živković, S., Tran, N. H., Lampe, N., Sakata, D., Petrović, I., Ristić-Fira, A., Shin, W., Zein, S., Brown, J. M.C., Kyriakou, I., Emfietzoglou, D., Guatelli, S.,& Incerti, S.. (2023). Geant4-DNA simulation of human cancer cells irradiation with helium ion beams. in Physica Medica, 112.
https://doi.org/10.1016/j.ejmp.2023.102613

Chatzipapas K, Đorđević M, Živković S, Tran NH, Lampe N, Sakata D, Petrović I, Ristić-Fira A, Shin W, Zein S, Brown JM, Kyriakou I, Emfietzoglou D, Guatelli S, Incerti S. Geant4-DNA simulation of human cancer cells irradiation with helium ion beams. in Physica Medica. 2023;112.
doi:10.1016/j.ejmp.2023.102613 .

Chatzipapas, Konstantinos, Đorđević, Miloš, Živković, Sara, Tran, Ngoc Hoang, Lampe, Nathanael, Sakata, Dousatsu, Petrović, Ivan, Ristić-Fira, Aleksandra, Shin, Wook-Geun, Zein, Sara, Brown, Jeremy M.C., Kyriakou, Ioanna, Emfietzoglou, Dimitris, Guatelli, Susanna, Incerti, Sebastien, "Geant4-DNA simulation of human cancer cells irradiation with helium ion beams" in Physica Medica, 112 (2023),
https://doi.org/10.1016/j.ejmp.2023.102613 . .

TY  - JOUR
AU  - Fattori, Serena
AU  - Petringa, Giada
AU  - Agosteo, Stefano
AU  - Bortot, Davide
AU  - Conte, Valeria
AU  - Cuttone, Giacomo
AU  - Di Fini, Andrea
AU  - Farokhi, Fatemeh
AU  - Mazzucconi, Davide
AU  - Pandola, Luciano
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Rosenfeld, Anatoly
AU  - Weber, Uli
AU  - Cirrone, Giuseppe Pablo
PY  - 2022
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/10393
AB  - In the present hadrontherapy scenario, there is a growing interest in exploring the capabilities of different ion species other than protons and carbons. The possibility of using different ions paves the way for new radiotherapy approaches, such as the multi-ions treatment, where radiation could vary according to target volume, shape, depth and histologic characteristics of the tumor. For these reasons, in this paper, the study and understanding of biological-relevant quantities was extended for the case of 4He ion. Approach. Geant4 Monte Carlo based algorithms for dose- and track-averaged LET (Linear Energy Transfer) calculations, were validated for 4He ions and for the case of a mixed field characterised by the presence of secondary ions from both target and projectile fragmentation. The simulated dose and track averaged LETs were compared with the corresponding dose and frequency mean values of the lineal energy, and , derived from experimental microdosimetric spectra. Two microdosimetric experimental campaigns were carried out at the Italian eye proton therapy facility of the Laboratori Nazionali del Sud of Istituto Nazionale di Fisica Nucleare (INFN-LNS, Catania, I) using two different microdosimeters: the MicroPlus probe and the nano-TEPC (Tissue Equivalent Proportional Counter). Main results. A good agreement of and with and experimentally measured with both microdosimetric detectors MicroPlus and nano-TEPC in two configurations: full energy and modulated 4He ion beam, was found. Significance. The results of this study certify the use of a very effective tool for the precise calculation of LET, given by a Monte Carlo approach which has the advantage of allowing detailed simulation and tracking of nuclear interactions, even in complex clinical scenarios.
T2  - Physics in Medicine & Biology
T1  - 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification
VL  - 67
IS  - 16
SP  - 165003
DO  - 10.1088/1361-6560/ac776f
ER  - 

@article{
author = "Fattori, Serena and Petringa, Giada and Agosteo, Stefano and Bortot, Davide and Conte, Valeria and Cuttone, Giacomo and Di Fini, Andrea and Farokhi, Fatemeh and Mazzucconi, Davide and Pandola, Luciano and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Rosenfeld, Anatoly and Weber, Uli and Cirrone, Giuseppe Pablo",
year = "2022",
abstract = "In the present hadrontherapy scenario, there is a growing interest in exploring the capabilities of different ion species other than protons and carbons. The possibility of using different ions paves the way for new radiotherapy approaches, such as the multi-ions treatment, where radiation could vary according to target volume, shape, depth and histologic characteristics of the tumor. For these reasons, in this paper, the study and understanding of biological-relevant quantities was extended for the case of 4He ion. Approach. Geant4 Monte Carlo based algorithms for dose- and track-averaged LET (Linear Energy Transfer) calculations, were validated for 4He ions and for the case of a mixed field characterised by the presence of secondary ions from both target and projectile fragmentation. The simulated dose and track averaged LETs were compared with the corresponding dose and frequency mean values of the lineal energy, and , derived from experimental microdosimetric spectra. Two microdosimetric experimental campaigns were carried out at the Italian eye proton therapy facility of the Laboratori Nazionali del Sud of Istituto Nazionale di Fisica Nucleare (INFN-LNS, Catania, I) using two different microdosimeters: the MicroPlus probe and the nano-TEPC (Tissue Equivalent Proportional Counter). Main results. A good agreement of and with and experimentally measured with both microdosimetric detectors MicroPlus and nano-TEPC in two configurations: full energy and modulated 4He ion beam, was found. Significance. The results of this study certify the use of a very effective tool for the precise calculation of LET, given by a Monte Carlo approach which has the advantage of allowing detailed simulation and tracking of nuclear interactions, even in complex clinical scenarios.",
journal = "Physics in Medicine & Biology",
title = "4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification",
volume = "67",
number = "16",
pages = "165003",
doi = "10.1088/1361-6560/ac776f"
}

Fattori, S., Petringa, G., Agosteo, S., Bortot, D., Conte, V., Cuttone, G., Di Fini, A., Farokhi, F., Mazzucconi, D., Pandola, L., Petrović, I. M., Ristić-Fira, A., Rosenfeld, A., Weber, U.,& Cirrone, G. P.. (2022). 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification. in Physics in Medicine & Biology, 67(16), 165003.
https://doi.org/10.1088/1361-6560/ac776f

Fattori S, Petringa G, Agosteo S, Bortot D, Conte V, Cuttone G, Di Fini A, Farokhi F, Mazzucconi D, Pandola L, Petrović IM, Ristić-Fira A, Rosenfeld A, Weber U, Cirrone GP. 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification. in Physics in Medicine & Biology. 2022;67(16):165003.
doi:10.1088/1361-6560/ac776f .

Fattori, Serena, Petringa, Giada, Agosteo, Stefano, Bortot, Davide, Conte, Valeria, Cuttone, Giacomo, Di Fini, Andrea, Farokhi, Fatemeh, Mazzucconi, Davide, Pandola, Luciano, Petrović, Ivan M., Ristić-Fira, Aleksandra, Rosenfeld, Anatoly, Weber, Uli, Cirrone, Giuseppe Pablo, "4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification" in Physics in Medicine & Biology, 67, no. 16 (2022):165003,
https://doi.org/10.1088/1361-6560/ac776f . .

TY  - JOUR
AU  - Fattori, Serena
AU  - Petringa, Giada
AU  - Agosteo, Stefano
AU  - Bortot, Davide
AU  - Conte, Valeria
AU  - Cuttone, Giacomo
AU  - Di Fini, Andrea
AU  - Farokhi, Fatemeh
AU  - Mazzucconi, Davide
AU  - Pandola, Luciano
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Rosenfeld, Anatoly
AU  - Weber, Uli
AU  - Cirrone, Giuseppe Pablo
PY  - 2022
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/10586
AB  - In the present hadrontherapy scenario, there is a growing interest in exploring the capabilities of different ion species other than protons and carbons. The possibility of using different ions paves the way for new radiotherapy approaches, such as the multi-ions treatment, where radiation could vary according to target volume, shape, depth and histologic characteristics of the tumor. For these reasons, in this paper, the study and understanding of biological-relevant quantities was extended for the case of 4He ion. Approach. Geant4 Monte Carlo based algorithms for dose- and track-averaged LET (Linear Energy Transfer) calculations, were validated for 4He ions and for the case of a mixed field characterised by the presence of secondary ions from both target and projectile fragmentation. The simulated dose and track averaged LETs were compared with the corresponding dose and frequency mean values of the lineal energy, and , derived from experimental microdosimetric spectra. Two microdosimetric experimental campaigns were carried out at the Italian eye proton therapy facility of the Laboratori Nazionali del Sud of Istituto Nazionale di Fisica Nucleare (INFN-LNS, Catania, I) using two different microdosimeters: the MicroPlus probe and the nano-TEPC (Tissue Equivalent Proportional Counter). Main results. A good agreement of and with and experimentally measured with both microdosimetric detectors MicroPlus and nano-TEPC in two configurations: full energy and modulated 4He ion beam, was found. Significance. The results of this study certify the use of a very effective tool for the precise calculation of LET, given by a Monte Carlo approach which has the advantage of allowing detailed simulation and tracking of nuclear interactions, even in complex clinical scenarios.
T2  - Physics in Medicine & Biology
T1  - 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification
VL  - 67
IS  - 16
SP  - 165003
DO  - 10.1088/1361-6560/ac776f
ER  - 

@article{
author = "Fattori, Serena and Petringa, Giada and Agosteo, Stefano and Bortot, Davide and Conte, Valeria and Cuttone, Giacomo and Di Fini, Andrea and Farokhi, Fatemeh and Mazzucconi, Davide and Pandola, Luciano and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Rosenfeld, Anatoly and Weber, Uli and Cirrone, Giuseppe Pablo",
year = "2022",
abstract = "In the present hadrontherapy scenario, there is a growing interest in exploring the capabilities of different ion species other than protons and carbons. The possibility of using different ions paves the way for new radiotherapy approaches, such as the multi-ions treatment, where radiation could vary according to target volume, shape, depth and histologic characteristics of the tumor. For these reasons, in this paper, the study and understanding of biological-relevant quantities was extended for the case of 4He ion. Approach. Geant4 Monte Carlo based algorithms for dose- and track-averaged LET (Linear Energy Transfer) calculations, were validated for 4He ions and for the case of a mixed field characterised by the presence of secondary ions from both target and projectile fragmentation. The simulated dose and track averaged LETs were compared with the corresponding dose and frequency mean values of the lineal energy, and , derived from experimental microdosimetric spectra. Two microdosimetric experimental campaigns were carried out at the Italian eye proton therapy facility of the Laboratori Nazionali del Sud of Istituto Nazionale di Fisica Nucleare (INFN-LNS, Catania, I) using two different microdosimeters: the MicroPlus probe and the nano-TEPC (Tissue Equivalent Proportional Counter). Main results. A good agreement of and with and experimentally measured with both microdosimetric detectors MicroPlus and nano-TEPC in two configurations: full energy and modulated 4He ion beam, was found. Significance. The results of this study certify the use of a very effective tool for the precise calculation of LET, given by a Monte Carlo approach which has the advantage of allowing detailed simulation and tracking of nuclear interactions, even in complex clinical scenarios.",
journal = "Physics in Medicine & Biology",
title = "4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification",
volume = "67",
number = "16",
pages = "165003",
doi = "10.1088/1361-6560/ac776f"
}

Fattori, S., Petringa, G., Agosteo, S., Bortot, D., Conte, V., Cuttone, G., Di Fini, A., Farokhi, F., Mazzucconi, D., Pandola, L., Petrović, I. M., Ristić-Fira, A., Rosenfeld, A., Weber, U.,& Cirrone, G. P.. (2022). 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification. in Physics in Medicine & Biology, 67(16), 165003.
https://doi.org/10.1088/1361-6560/ac776f

Fattori S, Petringa G, Agosteo S, Bortot D, Conte V, Cuttone G, Di Fini A, Farokhi F, Mazzucconi D, Pandola L, Petrović IM, Ristić-Fira A, Rosenfeld A, Weber U, Cirrone GP. 4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification. in Physics in Medicine & Biology. 2022;67(16):165003.
doi:10.1088/1361-6560/ac776f .

Fattori, Serena, Petringa, Giada, Agosteo, Stefano, Bortot, Davide, Conte, Valeria, Cuttone, Giacomo, Di Fini, Andrea, Farokhi, Fatemeh, Mazzucconi, Davide, Pandola, Luciano, Petrović, Ivan M., Ristić-Fira, Aleksandra, Rosenfeld, Anatoly, Weber, Uli, Cirrone, Giuseppe Pablo, "4He dose- and track-averaged linear energy transfer: Monte Carlo algorithms and experimental verification" in Physics in Medicine & Biology, 67, no. 16 (2022):165003,
https://doi.org/10.1088/1361-6560/ac776f . .

TY  - JOUR
AU  - Shin, Wook-Geun
AU  - Sakata, Dousatsu
AU  - Lampe, Nathanael
AU  - Belov, Oleg
AU  - Tran, Ngoc Hoang
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Đorđević, Miloš
AU  - Bernal, Mario A.
AU  - Bordage, Marie-Claude
AU  - Francis, Ziad
AU  - Kyriakou, Ioanna
AU  - Perrot, Yann
AU  - Sasaki, Takashi
AU  - Villagrasa, Carmen
AU  - Guatelli, Susanna
AU  - Breton, Vincent
AU  - Emfietzoglou, Dimitris
AU  - Incerti, Sebastien
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9961
AB  - Accurately modeling the radiobiological mechanisms responsible for the induction of DNA damage remains a major scientific challenge, particularly for understanding the effects of low doses of ionizing radiation on living beings, such as the induction of carcinogenesis. A computational approach based on the Monte Carlo technique to simulate track structures in a biological medium is currently the most reliable method for calculating the early effects induced by ionizing radiation on DNA, the primary cellular target of such effects. The Geant4-DNA Monte Carlo toolkit can simulate not only the physical, but also the physico-chemical and chemical stages of water radiolysis. These stages can be combined with simplified geometric models of biological targets, such as DNA, to assess direct and indirect early DNA damage. In this study, DNA damage induced in a human fibroblast cell was evaluated using Geant4-DNA as a function of incident particle type (gammas, protons, and alphas) and energy. The resulting double-strand break yields as a function of linear energy transfer closely reproduced recent experimental data. Other quantities, such as fragment length distribution, scavengeable damage fraction, and time evolution of damage within an analytical repair model also supported the plausibility of predicting DNA damage using Geant4-DNA.The complete simulation chain application “molecularDNA”, an example for users of Geant4-DNA, will soon be distributed through Geant4.
T2  - Cancers
T2  - Cancers
T1  - A Geant4-DNA Evaluation of Radiation-Induced DNA Damage on a Human Fibroblast
VL  - 13
IS  - 19
SP  - 4940
DO  - 10.3390/cancers13194940
ER  - 

@article{
author = "Shin, Wook-Geun and Sakata, Dousatsu and Lampe, Nathanael and Belov, Oleg and Tran, Ngoc Hoang and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Đorđević, Miloš and Bernal, Mario A. and Bordage, Marie-Claude and Francis, Ziad and Kyriakou, Ioanna and Perrot, Yann and Sasaki, Takashi and Villagrasa, Carmen and Guatelli, Susanna and Breton, Vincent and Emfietzoglou, Dimitris and Incerti, Sebastien",
year = "2021",
abstract = "Accurately modeling the radiobiological mechanisms responsible for the induction of DNA damage remains a major scientific challenge, particularly for understanding the effects of low doses of ionizing radiation on living beings, such as the induction of carcinogenesis. A computational approach based on the Monte Carlo technique to simulate track structures in a biological medium is currently the most reliable method for calculating the early effects induced by ionizing radiation on DNA, the primary cellular target of such effects. The Geant4-DNA Monte Carlo toolkit can simulate not only the physical, but also the physico-chemical and chemical stages of water radiolysis. These stages can be combined with simplified geometric models of biological targets, such as DNA, to assess direct and indirect early DNA damage. In this study, DNA damage induced in a human fibroblast cell was evaluated using Geant4-DNA as a function of incident particle type (gammas, protons, and alphas) and energy. The resulting double-strand break yields as a function of linear energy transfer closely reproduced recent experimental data. Other quantities, such as fragment length distribution, scavengeable damage fraction, and time evolution of damage within an analytical repair model also supported the plausibility of predicting DNA damage using Geant4-DNA.The complete simulation chain application “molecularDNA”, an example for users of Geant4-DNA, will soon be distributed through Geant4.",
journal = "Cancers, Cancers",
title = "A Geant4-DNA Evaluation of Radiation-Induced DNA Damage on a Human Fibroblast",
volume = "13",
number = "19",
pages = "4940",
doi = "10.3390/cancers13194940"
}

Shin, W., Sakata, D., Lampe, N., Belov, O., Tran, N. H., Petrović, I. M., Ristić-Fira, A., Đorđević, M., Bernal, M. A., Bordage, M., Francis, Z., Kyriakou, I., Perrot, Y., Sasaki, T., Villagrasa, C., Guatelli, S., Breton, V., Emfietzoglou, D.,& Incerti, S.. (2021). A Geant4-DNA Evaluation of Radiation-Induced DNA Damage on a Human Fibroblast. in Cancers, 13(19), 4940.
https://doi.org/10.3390/cancers13194940

Shin W, Sakata D, Lampe N, Belov O, Tran NH, Petrović IM, Ristić-Fira A, Đorđević M, Bernal MA, Bordage M, Francis Z, Kyriakou I, Perrot Y, Sasaki T, Villagrasa C, Guatelli S, Breton V, Emfietzoglou D, Incerti S. A Geant4-DNA Evaluation of Radiation-Induced DNA Damage on a Human Fibroblast. in Cancers. 2021;13(19):4940.
doi:10.3390/cancers13194940 .

Shin, Wook-Geun, Sakata, Dousatsu, Lampe, Nathanael, Belov, Oleg, Tran, Ngoc Hoang, Petrović, Ivan M., Ristić-Fira, Aleksandra, Đorđević, Miloš, Bernal, Mario A., Bordage, Marie-Claude, Francis, Ziad, Kyriakou, Ioanna, Perrot, Yann, Sasaki, Takashi, Villagrasa, Carmen, Guatelli, Susanna, Breton, Vincent, Emfietzoglou, Dimitris, Incerti, Sebastien, "A Geant4-DNA Evaluation of Radiation-Induced DNA Damage on a Human Fibroblast" in Cancers, 13, no. 19 (2021):4940,
https://doi.org/10.3390/cancers13194940 . .

TY  - JOUR
AU  - Keta, Otilija D.
AU  - Petković, Vladana
AU  - Cirrone, Pablo
AU  - Petringa, Giada
AU  - Cuttone, Giacomo
AU  - Sakata, Dousatsu
AU  - Shin, Wook-Geun
AU  - Incerti, Sebastien
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9875
AB  - Purpose The complex relationship between linear energy transfer (LET) and cellular response to radiation is not yet fully elucidated. To better characterize DNA damage after irradiations with therapeutic protons, we monitored formation and disappearance of DNA double-strand breaks (DNA DSB) as a function of LET and time. Comparisons with conventional γ-rays and high LET carbon ions were also performed.Materials and Methods In the present work, we performed immunofluorescence-based assay to determine the amount of DNA DSB induced by different LET values along the 62 MeV therapeutic proton Spread out Bragg peak (SOBP) in three cancer cell lines, i.e. HTB140 melanoma, MCF-7 breast adenocarcinoma and HTB177 non-small lung cancer cells. Time dependence of foci formation was followed as well. To determine irradiation positions, corresponding to the desired LET values, numerical simulations were carried out using Geant4 toolkit. We compared γ-H2AX foci persistence after irradiations with protons to that of γ-rays and carbon ions.Results With the rise of LET values along the therapeutic proton SOBP, the increase of γ-H2AX foci number is detected in the three cell lines up to the distal end of the SOBP, while there is a decrease on its distal fall-off part. With the prolonged incubation time, the number of foci gradually drops tending to attain the residual level. For the maximum number of DNA DSB, irradiation with protons attain higher level than that of γ-rays. Carbon ions produce more DNA DSB than protons but not substantially. The number of residual foci produced by γ-rays is significantly lower than that of protons and particularly carbon ions. Carbon ions do not produce considerably higher number of foci than protons, as it could be expected due to their physical properties.Conclusions In situ visualization of γ-H2AX foci reveal creation of more lesions in the three cell lines by clinically relevant proton SOBP than γ-rays. The lack of significant differences in the number of γ-H2AX foci between the proton and carbon ion-irradiated samples suggests an increased complexity of DNA lesions and slower repair kinetics after carbon ions compared to protons. For all three irradiation types, there is no major difference between the three cell lines shortly after irradiations, while later on, the formation of residual foci starts to express the inherent nature of tested cells, therefore increasing discrepancy between them.
T2  - International Journal of Radiation Biology
T1  - DNA double-strand breaks in cancer cells as a function of proton linear energy transfer and its variation in time
VL  - 97
IS  - 9
SP  - 1229
EP  - 1240
DO  - 10.1080/09553002.2021.1948140
ER  - 

@article{
author = "Keta, Otilija D. and Petković, Vladana and Cirrone, Pablo and Petringa, Giada and Cuttone, Giacomo and Sakata, Dousatsu and Shin, Wook-Geun and Incerti, Sebastien and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2021",
abstract = "Purpose The complex relationship between linear energy transfer (LET) and cellular response to radiation is not yet fully elucidated. To better characterize DNA damage after irradiations with therapeutic protons, we monitored formation and disappearance of DNA double-strand breaks (DNA DSB) as a function of LET and time. Comparisons with conventional γ-rays and high LET carbon ions were also performed.Materials and Methods In the present work, we performed immunofluorescence-based assay to determine the amount of DNA DSB induced by different LET values along the 62 MeV therapeutic proton Spread out Bragg peak (SOBP) in three cancer cell lines, i.e. HTB140 melanoma, MCF-7 breast adenocarcinoma and HTB177 non-small lung cancer cells. Time dependence of foci formation was followed as well. To determine irradiation positions, corresponding to the desired LET values, numerical simulations were carried out using Geant4 toolkit. We compared γ-H2AX foci persistence after irradiations with protons to that of γ-rays and carbon ions.Results With the rise of LET values along the therapeutic proton SOBP, the increase of γ-H2AX foci number is detected in the three cell lines up to the distal end of the SOBP, while there is a decrease on its distal fall-off part. With the prolonged incubation time, the number of foci gradually drops tending to attain the residual level. For the maximum number of DNA DSB, irradiation with protons attain higher level than that of γ-rays. Carbon ions produce more DNA DSB than protons but not substantially. The number of residual foci produced by γ-rays is significantly lower than that of protons and particularly carbon ions. Carbon ions do not produce considerably higher number of foci than protons, as it could be expected due to their physical properties.Conclusions In situ visualization of γ-H2AX foci reveal creation of more lesions in the three cell lines by clinically relevant proton SOBP than γ-rays. The lack of significant differences in the number of γ-H2AX foci between the proton and carbon ion-irradiated samples suggests an increased complexity of DNA lesions and slower repair kinetics after carbon ions compared to protons. For all three irradiation types, there is no major difference between the three cell lines shortly after irradiations, while later on, the formation of residual foci starts to express the inherent nature of tested cells, therefore increasing discrepancy between them.",
journal = "International Journal of Radiation Biology",
title = "DNA double-strand breaks in cancer cells as a function of proton linear energy transfer and its variation in time",
volume = "97",
number = "9",
pages = "1229-1240",
doi = "10.1080/09553002.2021.1948140"
}

Keta, O. D., Petković, V., Cirrone, P., Petringa, G., Cuttone, G., Sakata, D., Shin, W., Incerti, S., Petrović, I. M.,& Ristić-Fira, A.. (2021). DNA double-strand breaks in cancer cells as a function of proton linear energy transfer and its variation in time. in International Journal of Radiation Biology, 97(9), 1229-1240.
https://doi.org/10.1080/09553002.2021.1948140

Keta OD, Petković V, Cirrone P, Petringa G, Cuttone G, Sakata D, Shin W, Incerti S, Petrović IM, Ristić-Fira A. DNA double-strand breaks in cancer cells as a function of proton linear energy transfer and its variation in time. in International Journal of Radiation Biology. 2021;97(9):1229-1240.
doi:10.1080/09553002.2021.1948140 .

Keta, Otilija D., Petković, Vladana, Cirrone, Pablo, Petringa, Giada, Cuttone, Giacomo, Sakata, Dousatsu, Shin, Wook-Geun, Incerti, Sebastien, Petrović, Ivan M., Ristić-Fira, Aleksandra, "DNA double-strand breaks in cancer cells as a function of proton linear energy transfer and its variation in time" in International Journal of Radiation Biology, 97, no. 9 (2021):1229-1240,
https://doi.org/10.1080/09553002.2021.1948140 . .

TY  - JOUR
AU  - Petringa, Giada
AU  - Calvaruso, Marco
AU  - Conte, Valeria
AU  - Bláha, Pavel
AU  - Bravatà, Valentina
AU  - Cammarata, Francesco Paolo
AU  - Cuttone, Giacomo
AU  - Forte, Giusi Irma
AU  - Keta, Otilija D.
AU  - Manti, Lorenzo
AU  - Minafra, Luigi
AU  - Petković, Vladana
AU  - Petrović, Ivan M.
AU  - Richiusa, Selene
AU  - Ristić-Fira, Aleksandra
AU  - Russo, Giorgio
AU  - Cirrone, Giuseppe Antonio Pablo
PY  - 2021
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9958
AB  - CATANA (Centro di AdroTerapia ed Applicazioni Nucleari Avanzate) was the first Italian protontherapy facility dedicated to the treatment of ocular neoplastic pathologies. It is in operation at the LNS Laboratories of the Italian Institute for Nuclear Physics (INFN-LNS) and to date, 500 patients have been successfully treated. Even though proton therapy has demonstrated success in clinical settings, there is still a need for more accurate models because they are crucial for the estimation of clinically relevant RBE values. Since RBE can vary depending on several physical and biological parameters, there is a clear need for more experimental data to generate predictions. Establishing a database of cell survival experiments is therefore useful to accurately predict the effects of irradiations on both cancerous and normal tissue. The main aim of this work was to compare RBE values obtained from in-vitro experimental data with predictions made by the LEM II (Local Effect Model), Monte Carlo approaches, and semi-empirical models based on LET experimental measurements. For this purpose, the 92.1 uveal melanoma and ARPE-19 cells derived from normal retinal pigmented epithelium were selected and irradiated in the middle of clinical SOBP of the CATANA proton therapy facility. The remarkable results show the potentiality of using microdosimetric spectrum, Monte Carlo simulations and LEM model to predict not only the RBE but also the survival curves.
T2  - Applied Sciences
T1  - Radiobiological Outcomes, Microdosimetric Evaluations and Monte Carlo Predictions in Eye Proton Therapy
VL  - 11
IS  - 19
SP  - 8822
DO  - 10.3390/app11198822
ER  - 

@article{
author = "Petringa, Giada and Calvaruso, Marco and Conte, Valeria and Bláha, Pavel and Bravatà, Valentina and Cammarata, Francesco Paolo and Cuttone, Giacomo and Forte, Giusi Irma and Keta, Otilija D. and Manti, Lorenzo and Minafra, Luigi and Petković, Vladana and Petrović, Ivan M. and Richiusa, Selene and Ristić-Fira, Aleksandra and Russo, Giorgio and Cirrone, Giuseppe Antonio Pablo",
year = "2021",
abstract = "CATANA (Centro di AdroTerapia ed Applicazioni Nucleari Avanzate) was the first Italian protontherapy facility dedicated to the treatment of ocular neoplastic pathologies. It is in operation at the LNS Laboratories of the Italian Institute for Nuclear Physics (INFN-LNS) and to date, 500 patients have been successfully treated. Even though proton therapy has demonstrated success in clinical settings, there is still a need for more accurate models because they are crucial for the estimation of clinically relevant RBE values. Since RBE can vary depending on several physical and biological parameters, there is a clear need for more experimental data to generate predictions. Establishing a database of cell survival experiments is therefore useful to accurately predict the effects of irradiations on both cancerous and normal tissue. The main aim of this work was to compare RBE values obtained from in-vitro experimental data with predictions made by the LEM II (Local Effect Model), Monte Carlo approaches, and semi-empirical models based on LET experimental measurements. For this purpose, the 92.1 uveal melanoma and ARPE-19 cells derived from normal retinal pigmented epithelium were selected and irradiated in the middle of clinical SOBP of the CATANA proton therapy facility. The remarkable results show the potentiality of using microdosimetric spectrum, Monte Carlo simulations and LEM model to predict not only the RBE but also the survival curves.",
journal = "Applied Sciences",
title = "Radiobiological Outcomes, Microdosimetric Evaluations and Monte Carlo Predictions in Eye Proton Therapy",
volume = "11",
number = "19",
pages = "8822",
doi = "10.3390/app11198822"
}

Petringa, G., Calvaruso, M., Conte, V., Bláha, P., Bravatà, V., Cammarata, F. P., Cuttone, G., Forte, G. I., Keta, O. D., Manti, L., Minafra, L., Petković, V., Petrović, I. M., Richiusa, S., Ristić-Fira, A., Russo, G.,& Cirrone, G. A. P.. (2021). Radiobiological Outcomes, Microdosimetric Evaluations and Monte Carlo Predictions in Eye Proton Therapy. in Applied Sciences, 11(19), 8822.
https://doi.org/10.3390/app11198822

Petringa G, Calvaruso M, Conte V, Bláha P, Bravatà V, Cammarata FP, Cuttone G, Forte GI, Keta OD, Manti L, Minafra L, Petković V, Petrović IM, Richiusa S, Ristić-Fira A, Russo G, Cirrone GAP. Radiobiological Outcomes, Microdosimetric Evaluations and Monte Carlo Predictions in Eye Proton Therapy. in Applied Sciences. 2021;11(19):8822.
doi:10.3390/app11198822 .

Petringa, Giada, Calvaruso, Marco, Conte, Valeria, Bláha, Pavel, Bravatà, Valentina, Cammarata, Francesco Paolo, Cuttone, Giacomo, Forte, Giusi Irma, Keta, Otilija D., Manti, Lorenzo, Minafra, Luigi, Petković, Vladana, Petrović, Ivan M., Richiusa, Selene, Ristić-Fira, Aleksandra, Russo, Giorgio, Cirrone, Giuseppe Antonio Pablo, "Radiobiological Outcomes, Microdosimetric Evaluations and Monte Carlo Predictions in Eye Proton Therapy" in Applied Sciences, 11, no. 19 (2021):8822,
https://doi.org/10.3390/app11198822 . .

TY  - JOUR
AU  - Scholz, Michael
AU  - Friedrich, Thomas
AU  - Magrin, Giulio
AU  - Colautti, Paolo
AU  - Ristić-Fira, Aleksandra
AU  - Petrović, Ivan M.
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9614
AB  - The specific advantages of ion beams for application in tumor therapy are attributed to their different macroscopic and microscopic energy deposition pattern as compared to conventional photon radiation. On the macroscopic scale, the inverted dose profile with a Bragg peak and small lateral scattering allow a better conformation of the dose to the tumor. On the microscopic scale, the localized energy deposition around the trajectory of the particles leads to an enhanced biological effectiveness, typically expressed in terms of the relative biological effectiveness (RBE). Experimental investigations reveal complex dependencies of RBE on many physical and biological parameters, as e.g., ion species, dose, position in the field and cell or tissue type. In order to complement the experimental work, different approaches are used for the characterization of the specific physical and biological properties of ion beams. In a set of two papers, which are linked by activities within a European HORIZON 2020 project about nuclear science and application (ENSAR2), we describe recent developments in two fields playing a key role in characterizing the increased biological effectiveness. These comprise the biophysical modeling of RBE and the microdosimetric measurements in complex radiation fields. This first paper gives a brief introduction into these fields and then focuses on aspects of biophysical modeling of RBE, specifically on semi-empirical approaches that are currently used in treatment planning for ion beam therapy. It summarizes the status and recent developments of the Local Effect Model (LEM) and its conceptual framework and shows examples of model validation using recent experimental data. The model is compared to other approaches, e.g., to the Microdosimetric-Kinetic Model (MKM), that builds the bridge to the experimental microdosimetric work. © Copyright © 2020 Scholz, Friedrich, Magrin, Colautti, Ristić-Fira and Petrović.
T2  - Frontiers in Physics
T1  - Characterizing Radiation Effectiveness in Ion Beam Therapy Part I: Introduction and Biophysical Modeling of RBE Using the LEMIV
VL  - 8
DO  - 10.3389/fphy.2020.00272
ER  - 

@article{
author = "Scholz, Michael and Friedrich, Thomas and Magrin, Giulio and Colautti, Paolo and Ristić-Fira, Aleksandra and Petrović, Ivan M.",
year = "2020",
abstract = "The specific advantages of ion beams for application in tumor therapy are attributed to their different macroscopic and microscopic energy deposition pattern as compared to conventional photon radiation. On the macroscopic scale, the inverted dose profile with a Bragg peak and small lateral scattering allow a better conformation of the dose to the tumor. On the microscopic scale, the localized energy deposition around the trajectory of the particles leads to an enhanced biological effectiveness, typically expressed in terms of the relative biological effectiveness (RBE). Experimental investigations reveal complex dependencies of RBE on many physical and biological parameters, as e.g., ion species, dose, position in the field and cell or tissue type. In order to complement the experimental work, different approaches are used for the characterization of the specific physical and biological properties of ion beams. In a set of two papers, which are linked by activities within a European HORIZON 2020 project about nuclear science and application (ENSAR2), we describe recent developments in two fields playing a key role in characterizing the increased biological effectiveness. These comprise the biophysical modeling of RBE and the microdosimetric measurements in complex radiation fields. This first paper gives a brief introduction into these fields and then focuses on aspects of biophysical modeling of RBE, specifically on semi-empirical approaches that are currently used in treatment planning for ion beam therapy. It summarizes the status and recent developments of the Local Effect Model (LEM) and its conceptual framework and shows examples of model validation using recent experimental data. The model is compared to other approaches, e.g., to the Microdosimetric-Kinetic Model (MKM), that builds the bridge to the experimental microdosimetric work. © Copyright © 2020 Scholz, Friedrich, Magrin, Colautti, Ristić-Fira and Petrović.",
journal = "Frontiers in Physics",
title = "Characterizing Radiation Effectiveness in Ion Beam Therapy Part I: Introduction and Biophysical Modeling of RBE Using the LEMIV",
volume = "8",
doi = "10.3389/fphy.2020.00272"
}

Scholz, M., Friedrich, T., Magrin, G., Colautti, P., Ristić-Fira, A.,& Petrović, I. M.. (2020). Characterizing Radiation Effectiveness in Ion Beam Therapy Part I: Introduction and Biophysical Modeling of RBE Using the LEMIV. in Frontiers in Physics, 8.
https://doi.org/10.3389/fphy.2020.00272

Scholz M, Friedrich T, Magrin G, Colautti P, Ristić-Fira A, Petrović IM. Characterizing Radiation Effectiveness in Ion Beam Therapy Part I: Introduction and Biophysical Modeling of RBE Using the LEMIV. in Frontiers in Physics. 2020;8.
doi:10.3389/fphy.2020.00272 .

Scholz, Michael, Friedrich, Thomas, Magrin, Giulio, Colautti, Paolo, Ristić-Fira, Aleksandra, Petrović, Ivan M., "Characterizing Radiation Effectiveness in Ion Beam Therapy Part I: Introduction and Biophysical Modeling of RBE Using the LEMIV" in Frontiers in Physics, 8 (2020),
https://doi.org/10.3389/fphy.2020.00272 . .

TY  - JOUR
AU  - Sakata, Dousatsu
AU  - Belov, Oleg
AU  - Bordage, Marie-Claude
AU  - Emfietzoglou, Dimitris
AU  - Guatelli, Susanna
AU  - Inaniwa, Taku
AU  - Ivanchenko, Vladimir
AU  - Karamitros, Mathieu
AU  - Kyriakou, Ioanna
AU  - Lampe, Nathanael
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Shin, Wook-Geun
AU  - Incerti, Sebastien
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9751
AB  - Ionising radiation induced DNA damage and subsequent biological responses to it depend on the radiation's track-structure and its energy loss distribution pattern. To investigate the underlying biological mechanisms involved in such complex system, there is need of predicting biological response by integrated Monte Carlo (MC) simulations across physics, chemistry and biology. Hence, in this work, we have developed an application using the open source Geant4-DNA toolkit to propose a realistic "fully integrated" MC simulation to calculate both early DNA damage and subsequent biological responses with time. We had previously developed an application allowing simulations of radiation induced early DNA damage on a naked cell nucleus model. In the new version presented in this work, we have developed three additional important features: (1) modeling of a realistic cell geometry, (2) inclusion of a biological repair model, (3) refinement of DNA damage parameters for direct damage and indirect damage scoring. The simulation results are validated with experimental data in terms of Single Strand Break (SSB) yields for plasmid and Double Strand Break (DSB) yields for plasmid/human cell. In addition, the yields of indirect DSBs are compatible with the experimental scavengeable damage fraction. The simulation application also demonstrates agreement with experimental data of gamma -H2AX yields for gamma ray irradiation. Using this application, it is now possible to predict biological response along time through track-structure MC simulations.
T2  - Scientific Reports
T1  - Fully integrated Monte Carlo simulation for evaluating radiation induced DNA damage and subsequent repair using Geant4-DNA
VL  - 10
IS  - 1
SP  - 20788
DO  - 10.1038/s41598-020-75982-x
ER  - 

@article{
author = "Sakata, Dousatsu and Belov, Oleg and Bordage, Marie-Claude and Emfietzoglou, Dimitris and Guatelli, Susanna and Inaniwa, Taku and Ivanchenko, Vladimir and Karamitros, Mathieu and Kyriakou, Ioanna and Lampe, Nathanael and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Shin, Wook-Geun and Incerti, Sebastien",
year = "2020",
abstract = "Ionising radiation induced DNA damage and subsequent biological responses to it depend on the radiation's track-structure and its energy loss distribution pattern. To investigate the underlying biological mechanisms involved in such complex system, there is need of predicting biological response by integrated Monte Carlo (MC) simulations across physics, chemistry and biology. Hence, in this work, we have developed an application using the open source Geant4-DNA toolkit to propose a realistic "fully integrated" MC simulation to calculate both early DNA damage and subsequent biological responses with time. We had previously developed an application allowing simulations of radiation induced early DNA damage on a naked cell nucleus model. In the new version presented in this work, we have developed three additional important features: (1) modeling of a realistic cell geometry, (2) inclusion of a biological repair model, (3) refinement of DNA damage parameters for direct damage and indirect damage scoring. The simulation results are validated with experimental data in terms of Single Strand Break (SSB) yields for plasmid and Double Strand Break (DSB) yields for plasmid/human cell. In addition, the yields of indirect DSBs are compatible with the experimental scavengeable damage fraction. The simulation application also demonstrates agreement with experimental data of gamma -H2AX yields for gamma ray irradiation. Using this application, it is now possible to predict biological response along time through track-structure MC simulations.",
journal = "Scientific Reports",
title = "Fully integrated Monte Carlo simulation for evaluating radiation induced DNA damage and subsequent repair using Geant4-DNA",
volume = "10",
number = "1",
pages = "20788",
doi = "10.1038/s41598-020-75982-x"
}

Sakata, D., Belov, O., Bordage, M., Emfietzoglou, D., Guatelli, S., Inaniwa, T., Ivanchenko, V., Karamitros, M., Kyriakou, I., Lampe, N., Petrović, I. M., Ristić-Fira, A., Shin, W.,& Incerti, S.. (2020). Fully integrated Monte Carlo simulation for evaluating radiation induced DNA damage and subsequent repair using Geant4-DNA. in Scientific Reports, 10(1), 20788.
https://doi.org/10.1038/s41598-020-75982-x

Sakata D, Belov O, Bordage M, Emfietzoglou D, Guatelli S, Inaniwa T, Ivanchenko V, Karamitros M, Kyriakou I, Lampe N, Petrović IM, Ristić-Fira A, Shin W, Incerti S. Fully integrated Monte Carlo simulation for evaluating radiation induced DNA damage and subsequent repair using Geant4-DNA. in Scientific Reports. 2020;10(1):20788.
doi:10.1038/s41598-020-75982-x .

Sakata, Dousatsu, Belov, Oleg, Bordage, Marie-Claude, Emfietzoglou, Dimitris, Guatelli, Susanna, Inaniwa, Taku, Ivanchenko, Vladimir, Karamitros, Mathieu, Kyriakou, Ioanna, Lampe, Nathanael, Petrović, Ivan M., Ristić-Fira, Aleksandra, Shin, Wook-Geun, Incerti, Sebastien, "Fully integrated Monte Carlo simulation for evaluating radiation induced DNA damage and subsequent repair using Geant4-DNA" in Scientific Reports, 10, no. 1 (2020):20788,
https://doi.org/10.1038/s41598-020-75982-x . .

TY  - JOUR
AU  - Keta, Otilija D.
AU  - Deljanin, Milena
AU  - Petković, Vladana
AU  - Zdunić, Gordana
AU  - Janković, Teodora
AU  - Živković, Jelena
AU  - Ristić-Fira, Aleksandra
AU  - Petrović, Ivan M.
AU  - Šavikin, Katarina
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8996
AB  - The aim of the present study was to investigate effects of pomegranate peel (PP) extract on different human cancer cell lines. MTT was performed to estimate cytotoxic effects of PP extract against HTB140, HTB177, MCF7, HCT116 human cancer cell lines and MRC-5 normal fibroblasts. Clonogenic assay was used to reveal cell survival after the treatment with PP extract. Cell cycle analysis was done using flow cytometry. Wound healing assay was applied to estimate inhibitory effects of PP extract on migration of cancer cells. The results showed that PP extract expressed selective cytotoxicity for cancer cells compared to normal cell line. Analyzed cancer cell lines displayed individual variations in sensitivity to PP extract reflected through changes in clonogenic survival, cell cycle distribution and migration, which may be due to the specific nature of each tested cell line. In conclusion, PP extract exhibits good inhibitory effects on tested cancer cell lines.
T2  - Records of Natural Products
T1  - Pomegranate (Punica granatum L.) Peel Extract: Potential Cytotoxic Agent Against Different Cancer Cell Lines
VL  - 14
IS  - 5
SP  - 326
EP  - 339
DO  - 10.25135/rnp.170.19.11.1477
ER  - 

@article{
author = "Keta, Otilija D. and Deljanin, Milena and Petković, Vladana and Zdunić, Gordana and Janković, Teodora and Živković, Jelena and Ristić-Fira, Aleksandra and Petrović, Ivan M. and Šavikin, Katarina",
year = "2020",
abstract = "The aim of the present study was to investigate effects of pomegranate peel (PP) extract on different human cancer cell lines. MTT was performed to estimate cytotoxic effects of PP extract against HTB140, HTB177, MCF7, HCT116 human cancer cell lines and MRC-5 normal fibroblasts. Clonogenic assay was used to reveal cell survival after the treatment with PP extract. Cell cycle analysis was done using flow cytometry. Wound healing assay was applied to estimate inhibitory effects of PP extract on migration of cancer cells. The results showed that PP extract expressed selective cytotoxicity for cancer cells compared to normal cell line. Analyzed cancer cell lines displayed individual variations in sensitivity to PP extract reflected through changes in clonogenic survival, cell cycle distribution and migration, which may be due to the specific nature of each tested cell line. In conclusion, PP extract exhibits good inhibitory effects on tested cancer cell lines.",
journal = "Records of Natural Products",
title = "Pomegranate (Punica granatum L.) Peel Extract: Potential Cytotoxic Agent Against Different Cancer Cell Lines",
volume = "14",
number = "5",
pages = "326-339",
doi = "10.25135/rnp.170.19.11.1477"
}

Keta, O. D., Deljanin, M., Petković, V., Zdunić, G., Janković, T., Živković, J., Ristić-Fira, A., Petrović, I. M.,& Šavikin, K.. (2020). Pomegranate (Punica granatum L.) Peel Extract: Potential Cytotoxic Agent Against Different Cancer Cell Lines. in Records of Natural Products, 14(5), 326-339.
https://doi.org/10.25135/rnp.170.19.11.1477

Keta OD, Deljanin M, Petković V, Zdunić G, Janković T, Živković J, Ristić-Fira A, Petrović IM, Šavikin K. Pomegranate (Punica granatum L.) Peel Extract: Potential Cytotoxic Agent Against Different Cancer Cell Lines. in Records of Natural Products. 2020;14(5):326-339.
doi:10.25135/rnp.170.19.11.1477 .

Keta, Otilija D., Deljanin, Milena, Petković, Vladana, Zdunić, Gordana, Janković, Teodora, Živković, Jelena, Ristić-Fira, Aleksandra, Petrović, Ivan M., Šavikin, Katarina, "Pomegranate (Punica granatum L.) Peel Extract: Potential Cytotoxic Agent Against Different Cancer Cell Lines" in Records of Natural Products, 14, no. 5 (2020):326-339,
https://doi.org/10.25135/rnp.170.19.11.1477 . .

TY  - JOUR
AU  - Sakata, Dousatsu
AU  - Lampe, Nathanael
AU  - Karamitros, Mathieu
AU  - Kyriakou, Ioanna
AU  - Belov, Oleg
AU  - Bernal, Mario A
AU  - Bolst, David
AU  - Bordage, Marie-Claude
AU  - Breton, Vincent
AU  - Brown, Jeremy M.C.
AU  - Francis, Ziad
AU  - Ivanchenko, Vladimir
AU  - Meylan, Sylvain
AU  - Murakami, Koichi
AU  - Okada, Shogo
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Santin, Giovanni
AU  - Sarramia, David
AU  - Sasaki, Takashi
AU  - Shin, Wook-Geun
AU  - Tang, Nicolas
AU  - Tran, Hoang N
AU  - Villagrasa, Carmen
AU  - Emfietzoglou, Dimitris
AU  - Nieminen, Petteri
AU  - Guatelli, Susanna
AU  - Incerti, Sebastien
PY  - 2019
UR  - https://linkinghub.elsevier.com/retrieve/pii/S1120179719300882
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8206
AB  - The advancement of multidisciplinary research fields dealing with ionising radiation induced biological damage – radiobiology, radiation physics, radiation protection and, in particular, medical physics – requires a clear mechanistic understanding of how cellular damage is induced by ionising radiation. Monte Carlo (MC)simulations provide a promising approach for the mechanistic simulation of radiation transport and radiation chemistry, towards the in silico simulation of early biological damage. We have recently developed a fully integrated MC simulation that calculates early single strand breaks (SSBs)and double strand breaks (DSBs)in a fractal chromatin based human cell nucleus model. The results of this simulation are almost equivalent to past MC simulations when considering direct/indirect strand break fraction, DSB yields and fragment distribution. The simulation results agree with experimental data on DSB yields within 13.6% on average and fragment distributions agree within an average of 34.8%. © 2019 Associazione Italiana di Fisica Medica
T2  - Physica Medica
T1  - Evaluation of early radiation DNA damage in a fractal cell nucleus model using Geant4-DNA
VL  - 62
SP  - 152
EP  - 157
DO  - 10.1016/j.ejmp.2019.04.010
ER  - 

@article{
author = "Sakata, Dousatsu and Lampe, Nathanael and Karamitros, Mathieu and Kyriakou, Ioanna and Belov, Oleg and Bernal, Mario A and Bolst, David and Bordage, Marie-Claude and Breton, Vincent and Brown, Jeremy M.C. and Francis, Ziad and Ivanchenko, Vladimir and Meylan, Sylvain and Murakami, Koichi and Okada, Shogo and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Santin, Giovanni and Sarramia, David and Sasaki, Takashi and Shin, Wook-Geun and Tang, Nicolas and Tran, Hoang N and Villagrasa, Carmen and Emfietzoglou, Dimitris and Nieminen, Petteri and Guatelli, Susanna and Incerti, Sebastien",
year = "2019",
abstract = "The advancement of multidisciplinary research fields dealing with ionising radiation induced biological damage – radiobiology, radiation physics, radiation protection and, in particular, medical physics – requires a clear mechanistic understanding of how cellular damage is induced by ionising radiation. Monte Carlo (MC)simulations provide a promising approach for the mechanistic simulation of radiation transport and radiation chemistry, towards the in silico simulation of early biological damage. We have recently developed a fully integrated MC simulation that calculates early single strand breaks (SSBs)and double strand breaks (DSBs)in a fractal chromatin based human cell nucleus model. The results of this simulation are almost equivalent to past MC simulations when considering direct/indirect strand break fraction, DSB yields and fragment distribution. The simulation results agree with experimental data on DSB yields within 13.6% on average and fragment distributions agree within an average of 34.8%. © 2019 Associazione Italiana di Fisica Medica",
journal = "Physica Medica",
title = "Evaluation of early radiation DNA damage in a fractal cell nucleus model using Geant4-DNA",
volume = "62",
pages = "152-157",
doi = "10.1016/j.ejmp.2019.04.010"
}

Sakata, D., Lampe, N., Karamitros, M., Kyriakou, I., Belov, O., Bernal, M. A., Bolst, D., Bordage, M., Breton, V., Brown, J. M.C., Francis, Z., Ivanchenko, V., Meylan, S., Murakami, K., Okada, S., Petrović, I. M., Ristić-Fira, A., Santin, G., Sarramia, D., Sasaki, T., Shin, W., Tang, N., Tran, H. N., Villagrasa, C., Emfietzoglou, D., Nieminen, P., Guatelli, S.,& Incerti, S.. (2019). Evaluation of early radiation DNA damage in a fractal cell nucleus model using Geant4-DNA. in Physica Medica, 62, 152-157.
https://doi.org/10.1016/j.ejmp.2019.04.010

Sakata D, Lampe N, Karamitros M, Kyriakou I, Belov O, Bernal MA, Bolst D, Bordage M, Breton V, Brown JM, Francis Z, Ivanchenko V, Meylan S, Murakami K, Okada S, Petrović IM, Ristić-Fira A, Santin G, Sarramia D, Sasaki T, Shin W, Tang N, Tran HN, Villagrasa C, Emfietzoglou D, Nieminen P, Guatelli S, Incerti S. Evaluation of early radiation DNA damage in a fractal cell nucleus model using Geant4-DNA. in Physica Medica. 2019;62:152-157.
doi:10.1016/j.ejmp.2019.04.010 .

Sakata, Dousatsu, Lampe, Nathanael, Karamitros, Mathieu, Kyriakou, Ioanna, Belov, Oleg, Bernal, Mario A, Bolst, David, Bordage, Marie-Claude, Breton, Vincent, Brown, Jeremy M.C., Francis, Ziad, Ivanchenko, Vladimir, Meylan, Sylvain, Murakami, Koichi, Okada, Shogo, Petrović, Ivan M., Ristić-Fira, Aleksandra, Santin, Giovanni, Sarramia, David, Sasaki, Takashi, Shin, Wook-Geun, Tang, Nicolas, Tran, Hoang N, Villagrasa, Carmen, Emfietzoglou, Dimitris, Nieminen, Petteri, Guatelli, Susanna, Incerti, Sebastien, "Evaluation of early radiation DNA damage in a fractal cell nucleus model using Geant4-DNA" in Physica Medica, 62 (2019):152-157,
https://doi.org/10.1016/j.ejmp.2019.04.010 . .

TY  - CONF
AU  - Incerti, Sebastien
AU  - Petrović, Ivan
AU  - Ristić-Fira, Aleksandra
PY  - 2019
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/11143
PB  - RAD Centre, Niš, Serbia
C3  - RAD 2019 : 7th International Conference on Radiation in Various Fields of Research : book of abstracts; June 10-14, 2019; Herceg Novi, Montenegro
T1  - Monte Carlo simulation of early biological damage induced by ionizing radiation at the DNA scale: Overview of the Geant4-DNA project
SP  - 3
UR  - https://hdl.handle.net/21.15107/rcub_vinar_11143
ER  - 

@conference{
author = "Incerti, Sebastien and Petrović, Ivan and Ristić-Fira, Aleksandra",
year = "2019",
publisher = "RAD Centre, Niš, Serbia",
journal = "RAD 2019 : 7th International Conference on Radiation in Various Fields of Research : book of abstracts; June 10-14, 2019; Herceg Novi, Montenegro",
title = "Monte Carlo simulation of early biological damage induced by ionizing radiation at the DNA scale: Overview of the Geant4-DNA project",
pages = "3",
url = "https://hdl.handle.net/21.15107/rcub_vinar_11143"
}

Incerti, S., Petrović, I.,& Ristić-Fira, A.. (2019). Monte Carlo simulation of early biological damage induced by ionizing radiation at the DNA scale: Overview of the Geant4-DNA project. in RAD 2019 : 7th International Conference on Radiation in Various Fields of Research : book of abstracts; June 10-14, 2019; Herceg Novi, Montenegro
RAD Centre, Niš, Serbia., 3.
https://hdl.handle.net/21.15107/rcub_vinar_11143

Incerti S, Petrović I, Ristić-Fira A. Monte Carlo simulation of early biological damage induced by ionizing radiation at the DNA scale: Overview of the Geant4-DNA project. in RAD 2019 : 7th International Conference on Radiation in Various Fields of Research : book of abstracts; June 10-14, 2019; Herceg Novi, Montenegro. 2019;:3.
https://hdl.handle.net/21.15107/rcub_vinar_11143 .

Incerti, Sebastien, Petrović, Ivan, Ristić-Fira, Aleksandra, "Monte Carlo simulation of early biological damage induced by ionizing radiation at the DNA scale: Overview of the Geant4-DNA project" in RAD 2019 : 7th International Conference on Radiation in Various Fields of Research : book of abstracts; June 10-14, 2019; Herceg Novi, Montenegro (2019):3,
https://hdl.handle.net/21.15107/rcub_vinar_11143 .

TY  - JOUR
AU  - Petković, Vladana
AU  - Keta, Otilija D.
AU  - Vidosavljević, Marija Z.
AU  - Incerti, Sebastien
AU  - Ristić-Fira, Aleksandra
AU  - Petrović, Ivan M.
PY  - 2019
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8414
AB  - Purpose: Investigation of effects on DNA of γ-irradiated human cancer cells pretreated with free radical scavengers is aimed to create reference data which would enable assessment of the relative efficiency of high linear energy transfer (LET) radiations used in hadron therapy, i.e. protons and carbon ions. Materials and methods: MCF-7 breast and HTB177 lung cancer cells are irradiated with γ-rays. To minimize indirect effects of irradiation, dimethyl sulfoxide (DMSO) or glycerol are applied as free radical scavengers. Biological response to irradiation is evaluated through clonogenic cell survival, immunocytochemical and cell cycle analysis, as well as expression of proteins involved in DNA damage response. Results: Examined cell lines reveal similar level of radioresistance. Application of scavengers leads to the rise of cell survival and decreases the number of DNA double strand breaks in irradiated cells. Differences in cell cycle and protein expression between the two cell lines are probably caused by different DNA damage repair mechanisms that are activated. Conclusion: The obtained results show that DMSO and glycerol have good scavenging capacity, and may be used to minimize DNA damage induced by free radicals. Therefore, they will be used as the reference for comparison with high LET irradiations, as well as good experimental data suitable for validation of numerical simulations. © 2019, © 2019 Taylor & Francis Group, LLC.
T2  - International Journal of Radiation Biology
T1  - Biological outcomes of γ-radiation induced DNA damages in breast and lung cancer cells pretreated with free radical scavengers
VL  - 95
IS  - 3
SP  - 274
EP  - 285
DO  - 10.1080/09553002.2019.1549753
ER  - 

@article{
author = "Petković, Vladana and Keta, Otilija D. and Vidosavljević, Marija Z. and Incerti, Sebastien and Ristić-Fira, Aleksandra and Petrović, Ivan M.",
year = "2019",
abstract = "Purpose: Investigation of effects on DNA of γ-irradiated human cancer cells pretreated with free radical scavengers is aimed to create reference data which would enable assessment of the relative efficiency of high linear energy transfer (LET) radiations used in hadron therapy, i.e. protons and carbon ions. Materials and methods: MCF-7 breast and HTB177 lung cancer cells are irradiated with γ-rays. To minimize indirect effects of irradiation, dimethyl sulfoxide (DMSO) or glycerol are applied as free radical scavengers. Biological response to irradiation is evaluated through clonogenic cell survival, immunocytochemical and cell cycle analysis, as well as expression of proteins involved in DNA damage response. Results: Examined cell lines reveal similar level of radioresistance. Application of scavengers leads to the rise of cell survival and decreases the number of DNA double strand breaks in irradiated cells. Differences in cell cycle and protein expression between the two cell lines are probably caused by different DNA damage repair mechanisms that are activated. Conclusion: The obtained results show that DMSO and glycerol have good scavenging capacity, and may be used to minimize DNA damage induced by free radicals. Therefore, they will be used as the reference for comparison with high LET irradiations, as well as good experimental data suitable for validation of numerical simulations. © 2019, © 2019 Taylor & Francis Group, LLC.",
journal = "International Journal of Radiation Biology",
title = "Biological outcomes of γ-radiation induced DNA damages in breast and lung cancer cells pretreated with free radical scavengers",
volume = "95",
number = "3",
pages = "274-285",
doi = "10.1080/09553002.2019.1549753"
}

Petković, V., Keta, O. D., Vidosavljević, M. Z., Incerti, S., Ristić-Fira, A.,& Petrović, I. M.. (2019). Biological outcomes of γ-radiation induced DNA damages in breast and lung cancer cells pretreated with free radical scavengers. in International Journal of Radiation Biology, 95(3), 274-285.
https://doi.org/10.1080/09553002.2019.1549753

Petković V, Keta OD, Vidosavljević MZ, Incerti S, Ristić-Fira A, Petrović IM. Biological outcomes of γ-radiation induced DNA damages in breast and lung cancer cells pretreated with free radical scavengers. in International Journal of Radiation Biology. 2019;95(3):274-285.
doi:10.1080/09553002.2019.1549753 .

Petković, Vladana, Keta, Otilija D., Vidosavljević, Marija Z., Incerti, Sebastien, Ristić-Fira, Aleksandra, Petrović, Ivan M., "Biological outcomes of γ-radiation induced DNA damages in breast and lung cancer cells pretreated with free radical scavengers" in International Journal of Radiation Biology, 95, no. 3 (2019):274-285,
https://doi.org/10.1080/09553002.2019.1549753 . .

TY  - JOUR
AU  - Keta, Otilija D.
AU  - Todorović, Danijela V.
AU  - Bulat, Tanja M.
AU  - Cirrone, Giuseppe Antonio Pablo
AU  - Romano, Francesco
AU  - Cuttone, Giacomo
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2017
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1573
AB  - The aim of this study was to investigate effects of irradiations with the therapeutic proton and carbon ion beams in two non-small cell lung cancers, CRL5876 adenocarcinoma and HTB177 large cell lung carcinoma. The DNA damage response dynamics, cell cycle regulation, and cell death pathway activation were followed. Viability of both cell lines was lower after carbon ions compared to the therapeutic proton irradiations. HTB177 cells showed higher recovery than CRL5876 cells seven days following the treatments, but the survival rates of both cell lines were lower after exposure to carbon ions with respect to therapeutic protons. When analyzing cell cycle distribution of both CRL5876 and HTB177 cells, it was noticed that therapeutic protons predominantly induced G1 arrest, while the cells after carbon ions were arrested in G2/M phase. The results illustrated that differences in the levels of phosphorylated H2AX, a double-strand break marker, exist after therapeutic proton and carbon ion irradiations. We also observed dose- and time-dependent increase in the p53 and p21 levels after applied irradiations. Carbon ions caused larger increase in the quantity of p53 and p21 compared to therapeutic protons. These results suggested that various repair mechanisms were induced in the treated cells. Considering the fact that we have not observed any distinct change in the Bax/Bcl-2 ratio following irradiations, it seemed that different types of cell death were involved in the response to the two types of irradiations that were applied.
T2  - Experimental Biology and Medicine
T1  - Comparison of human lung cancer cell radiosensitivity after irradiations with therapeutic protons and carbon ions
VL  - 242
IS  - 10
SP  - 1015
EP  - 1024
DO  - 10.1177/1535370216669611
ER  - 

@article{
author = "Keta, Otilija D. and Todorović, Danijela V. and Bulat, Tanja M. and Cirrone, Giuseppe Antonio Pablo and Romano, Francesco and Cuttone, Giacomo and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2017",
abstract = "The aim of this study was to investigate effects of irradiations with the therapeutic proton and carbon ion beams in two non-small cell lung cancers, CRL5876 adenocarcinoma and HTB177 large cell lung carcinoma. The DNA damage response dynamics, cell cycle regulation, and cell death pathway activation were followed. Viability of both cell lines was lower after carbon ions compared to the therapeutic proton irradiations. HTB177 cells showed higher recovery than CRL5876 cells seven days following the treatments, but the survival rates of both cell lines were lower after exposure to carbon ions with respect to therapeutic protons. When analyzing cell cycle distribution of both CRL5876 and HTB177 cells, it was noticed that therapeutic protons predominantly induced G1 arrest, while the cells after carbon ions were arrested in G2/M phase. The results illustrated that differences in the levels of phosphorylated H2AX, a double-strand break marker, exist after therapeutic proton and carbon ion irradiations. We also observed dose- and time-dependent increase in the p53 and p21 levels after applied irradiations. Carbon ions caused larger increase in the quantity of p53 and p21 compared to therapeutic protons. These results suggested that various repair mechanisms were induced in the treated cells. Considering the fact that we have not observed any distinct change in the Bax/Bcl-2 ratio following irradiations, it seemed that different types of cell death were involved in the response to the two types of irradiations that were applied.",
journal = "Experimental Biology and Medicine",
title = "Comparison of human lung cancer cell radiosensitivity after irradiations with therapeutic protons and carbon ions",
volume = "242",
number = "10",
pages = "1015-1024",
doi = "10.1177/1535370216669611"
}

Keta, O. D., Todorović, D. V., Bulat, T. M., Cirrone, G. A. P., Romano, F., Cuttone, G., Petrović, I. M.,& Ristić-Fira, A.. (2017). Comparison of human lung cancer cell radiosensitivity after irradiations with therapeutic protons and carbon ions. in Experimental Biology and Medicine, 242(10), 1015-1024.
https://doi.org/10.1177/1535370216669611

Keta OD, Todorović DV, Bulat TM, Cirrone GAP, Romano F, Cuttone G, Petrović IM, Ristić-Fira A. Comparison of human lung cancer cell radiosensitivity after irradiations with therapeutic protons and carbon ions. in Experimental Biology and Medicine. 2017;242(10):1015-1024.
doi:10.1177/1535370216669611 .

Keta, Otilija D., Todorović, Danijela V., Bulat, Tanja M., Cirrone, Giuseppe Antonio Pablo, Romano, Francesco, Cuttone, Giacomo, Petrović, Ivan M., Ristić-Fira, Aleksandra, "Comparison of human lung cancer cell radiosensitivity after irradiations with therapeutic protons and carbon ions" in Experimental Biology and Medicine, 242, no. 10 (2017):1015-1024,
https://doi.org/10.1177/1535370216669611 . .

TY  - JOUR
AU  - Bulat, Tanja M.
AU  - Keta, Otilija D.
AU  - Korićanac, Lela
AU  - Žakula, Jelena
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
AU  - Todorović, Danijela V.
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/970
AB  - Ionizing radiation induces DNA double strand breaks (DSBs) that trigger phosphorylation of the histone protein H2AX (gamma H2AX). Immunofluorescent staining visualizes formation of gamma H2AX foci, allowing their quantification. This method, as opposed to Western blot assay and Flow cytometry, provides more accurate analysis, by showing exact position and intensity of fluorescent signal in each single cell. In practice there are problems in quantification of gamma H2AX. This paper is based on two issues: the determination of which technique should be applied concerning the radiation dose, and how to analyze fluorescent microscopy images obtained by different microscopes. HTB140 melanoma cells were exposed to gamma-rays, in the dose range from 1 to 16 Gy. Radiation effects on the DNA level were analyzed at different time intervals after irradiation by Western blot analysis and immunofluorescence microscopy. Immunochemically stained cells were visualized with two types of microscopes: AxioVision (Zeiss, Germany) microscope, comprising an ApoTome software, and AxioImagerA1 microscope (Zeiss, Germany). Obtained results show that the level of gamma H2AX is time and dose dependent. Immunofluorescence microscopy provided better detection of DSBs for lower irradiation doses, while Western blot analysis was more reliable for higher irradiation doses. AxioVision microscope containing ApoTome software was more suitable for the detection of gamma H2AX foci.
T2  - Anais de Academia Brasileira de Ciencias
T1  - Radiation dose determines the method for quantification of DNA double strand breaks
VL  - 88
IS  - 1
SP  - 127
EP  - 136
DO  - 10.1590/0001-3765201620140553
ER  - 

@article{
author = "Bulat, Tanja M. and Keta, Otilija D. and Korićanac, Lela and Žakula, Jelena and Petrović, Ivan M. and Ristić-Fira, Aleksandra and Todorović, Danijela V.",
year = "2016",
abstract = "Ionizing radiation induces DNA double strand breaks (DSBs) that trigger phosphorylation of the histone protein H2AX (gamma H2AX). Immunofluorescent staining visualizes formation of gamma H2AX foci, allowing their quantification. This method, as opposed to Western blot assay and Flow cytometry, provides more accurate analysis, by showing exact position and intensity of fluorescent signal in each single cell. In practice there are problems in quantification of gamma H2AX. This paper is based on two issues: the determination of which technique should be applied concerning the radiation dose, and how to analyze fluorescent microscopy images obtained by different microscopes. HTB140 melanoma cells were exposed to gamma-rays, in the dose range from 1 to 16 Gy. Radiation effects on the DNA level were analyzed at different time intervals after irradiation by Western blot analysis and immunofluorescence microscopy. Immunochemically stained cells were visualized with two types of microscopes: AxioVision (Zeiss, Germany) microscope, comprising an ApoTome software, and AxioImagerA1 microscope (Zeiss, Germany). Obtained results show that the level of gamma H2AX is time and dose dependent. Immunofluorescence microscopy provided better detection of DSBs for lower irradiation doses, while Western blot analysis was more reliable for higher irradiation doses. AxioVision microscope containing ApoTome software was more suitable for the detection of gamma H2AX foci.",
journal = "Anais de Academia Brasileira de Ciencias",
title = "Radiation dose determines the method for quantification of DNA double strand breaks",
volume = "88",
number = "1",
pages = "127-136",
doi = "10.1590/0001-3765201620140553"
}

Bulat, T. M., Keta, O. D., Korićanac, L., Žakula, J., Petrović, I. M., Ristić-Fira, A.,& Todorović, D. V.. (2016). Radiation dose determines the method for quantification of DNA double strand breaks. in Anais de Academia Brasileira de Ciencias, 88(1), 127-136.
https://doi.org/10.1590/0001-3765201620140553

Bulat TM, Keta OD, Korićanac L, Žakula J, Petrović IM, Ristić-Fira A, Todorović DV. Radiation dose determines the method for quantification of DNA double strand breaks. in Anais de Academia Brasileira de Ciencias. 2016;88(1):127-136.
doi:10.1590/0001-3765201620140553 .

Bulat, Tanja M., Keta, Otilija D., Korićanac, Lela, Žakula, Jelena, Petrović, Ivan M., Ristić-Fira, Aleksandra, Todorović, Danijela V., "Radiation dose determines the method for quantification of DNA double strand breaks" in Anais de Academia Brasileira de Ciencias, 88, no. 1 (2016):127-136,
https://doi.org/10.1590/0001-3765201620140553 . .

TY  - JOUR
AU  - Žakula, Jelena
AU  - Korićanac, Lela
AU  - Keta, Otilija D.
AU  - Todorović, Danijela V.
AU  - Cirrone, Giuseppe Antonio Pablo
AU  - Romano, Francesco
AU  - Cuttone, Giacomo
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1290
AB  - Background and objectives: The main goal when treating malignancies with radiation is to deprive tumour cells of their reproductive potential. One approach is to induce tumour cell apoptosis. This study was conducted to evaluate the ability of carbon ions (C-12) to induce apoptosis and cell cycle arrest in human HTB140 melanoma cells. Methods: In this in vitro study, human melanoma HTB140 cells were irradiated with the 62 MeV/n carbon (C-12) ion beam, having two different linear energy transfer (LET) values: 197 and 382 keV/mu m. The dose range was 2 to 16 Gy. Cell viability was estimated by the sulforhodamine B assay seven days after irradiation. The cell cycle and apoptosis were evaluated 48 h after irradiation using flow cytometry. At the same time point, protein and gene expression of apoptotic regulators were estimated using the Western blot and q-PCR methods, respectively. Results: Cell viability experiments indicated strong anti-tumour effects of C-12 ions. The analysis of cell cycle showed that C-12 ions blocked HTB140 cells in G2 phase and induced the dose dependent increase of apoptosis. The maximum value of 21.8 per cent was attained after irradiation with LET of 197 keV/mu m at the dose level of 16 Gy. Pro-apoptotic effects of C-12 ions were confirmed by changes of key apoptotic molecules: the p53, Bax, Bcl-2, poly ADP ribose polymerase (PARP) as well as nuclear factor kappa B (NF kappa B). At the level of protein expression, the results indicated significant increases of p53, NF kappa B and Bax/Bcl-2 ratio and PARP cleavage. The Bax/Bcl-2 mRNA ratio was also increased, while no change was detected in the level of NF kappa B mRNA. Interpretation and conclusions: The present results indicated that anti-tumour effects of C-12 ions in human melanoma HTB140 cells were accomplished through induction of the mitochondrial apoptotic pathway as well as G2 arrest.
T2  - Indian Journal of Medical Research
T1  - Carbon ions of different linear energy transfer (LET) values induce apoptosis and G2 cell cycle arrest in radio-resistant melanoma cells
VL  - 143
SP  - 120
EP  - 128
DO  - 10.4103/0971-5916.191811
ER  - 

@article{
author = "Žakula, Jelena and Korićanac, Lela and Keta, Otilija D. and Todorović, Danijela V. and Cirrone, Giuseppe Antonio Pablo and Romano, Francesco and Cuttone, Giacomo and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2016",
abstract = "Background and objectives: The main goal when treating malignancies with radiation is to deprive tumour cells of their reproductive potential. One approach is to induce tumour cell apoptosis. This study was conducted to evaluate the ability of carbon ions (C-12) to induce apoptosis and cell cycle arrest in human HTB140 melanoma cells. Methods: In this in vitro study, human melanoma HTB140 cells were irradiated with the 62 MeV/n carbon (C-12) ion beam, having two different linear energy transfer (LET) values: 197 and 382 keV/mu m. The dose range was 2 to 16 Gy. Cell viability was estimated by the sulforhodamine B assay seven days after irradiation. The cell cycle and apoptosis were evaluated 48 h after irradiation using flow cytometry. At the same time point, protein and gene expression of apoptotic regulators were estimated using the Western blot and q-PCR methods, respectively. Results: Cell viability experiments indicated strong anti-tumour effects of C-12 ions. The analysis of cell cycle showed that C-12 ions blocked HTB140 cells in G2 phase and induced the dose dependent increase of apoptosis. The maximum value of 21.8 per cent was attained after irradiation with LET of 197 keV/mu m at the dose level of 16 Gy. Pro-apoptotic effects of C-12 ions were confirmed by changes of key apoptotic molecules: the p53, Bax, Bcl-2, poly ADP ribose polymerase (PARP) as well as nuclear factor kappa B (NF kappa B). At the level of protein expression, the results indicated significant increases of p53, NF kappa B and Bax/Bcl-2 ratio and PARP cleavage. The Bax/Bcl-2 mRNA ratio was also increased, while no change was detected in the level of NF kappa B mRNA. Interpretation and conclusions: The present results indicated that anti-tumour effects of C-12 ions in human melanoma HTB140 cells were accomplished through induction of the mitochondrial apoptotic pathway as well as G2 arrest.",
journal = "Indian Journal of Medical Research",
title = "Carbon ions of different linear energy transfer (LET) values induce apoptosis and G2 cell cycle arrest in radio-resistant melanoma cells",
volume = "143",
pages = "120-128",
doi = "10.4103/0971-5916.191811"
}

Žakula, J., Korićanac, L., Keta, O. D., Todorović, D. V., Cirrone, G. A. P., Romano, F., Cuttone, G., Petrović, I. M.,& Ristić-Fira, A.. (2016). Carbon ions of different linear energy transfer (LET) values induce apoptosis and G2 cell cycle arrest in radio-resistant melanoma cells. in Indian Journal of Medical Research, 143, 120-128.
https://doi.org/10.4103/0971-5916.191811

Žakula J, Korićanac L, Keta OD, Todorović DV, Cirrone GAP, Romano F, Cuttone G, Petrović IM, Ristić-Fira A. Carbon ions of different linear energy transfer (LET) values induce apoptosis and G2 cell cycle arrest in radio-resistant melanoma cells. in Indian Journal of Medical Research. 2016;143:120-128.
doi:10.4103/0971-5916.191811 .

Žakula, Jelena, Korićanac, Lela, Keta, Otilija D., Todorović, Danijela V., Cirrone, Giuseppe Antonio Pablo, Romano, Francesco, Cuttone, Giacomo, Petrović, Ivan M., Ristić-Fira, Aleksandra, "Carbon ions of different linear energy transfer (LET) values induce apoptosis and G2 cell cycle arrest in radio-resistant melanoma cells" in Indian Journal of Medical Research, 143 (2016):120-128,
https://doi.org/10.4103/0971-5916.191811 . .

TY  - JOUR
AU  - Allison, John
AU  - Amako, Katsuya
AU  - Apostolakis, John
AU  - Arce, Pedro
AU  - Asai, Makoto
AU  - Aso, Tsukasa
AU  - Bagli, Enrico
AU  - Bagulya, Alexander V.
AU  - Banerjee, S
AU  - Barrand, Guy C.
AU  - Beck, Bret R.
AU  - Bogdanov, Aleksei G.
AU  - Brandt, Daniel
AU  - Brown, Jeremy Michael Cooney
AU  - Burkhardt, Helmut
AU  - Canal, Philippe
AU  - Cano-Ott, Daniel
AU  - Chauvie, S
AU  - Cho, Kihyeon
AU  - Cirrone, Giuseppe Antonio Pablo
AU  - Cooperman, Gene D.
AU  - Cortés-Giraldo, Miguel Antonio
AU  - Cosmo, Gabriele
AU  - Cuttone, Giacomo
AU  - Depaola, Gerardo O.
AU  - Desorgher, Laurent
AU  - Dong, Xin
AU  - Dotti, Andrea
AU  - Elvira, Daniel V.
AU  - Folger, Gunter
AU  - Francis, Ziad
AU  - Galoyan, Aida S.
AU  - Garnier, Laurent
AU  - Gayer, Marek
AU  - Genser, K.L.
AU  - Grichine, V.M.
AU  - Guatelli, S
AU  - Gueye, Paul L.J.
AU  - Gumplinger, Peter
AU  - Howard, Alexander S.
AU  - Hrivnacova, Ivana
AU  - Hwang, Soonwook
AU  - Incerti, Sebastien
AU  - Ivanchenko, A.
AU  - Ivanchenko, Vladimir
AU  - Jones, F.W.
AU  - Jun, S.Y.
AU  - Kaitaniemi, Pekka
AU  - Karakatsanis, Nicolas
AU  - Karamitros, M
AU  - Kelsey, M
AU  - Kimura, Akinori
AU  - Koi, Tatsumi
AU  - Kurashige, Hisaya
AU  - Lechner, Anton
AU  - Lee, Sebyeong
AU  - Longo, F
AU  - Maire, M
AU  - Mancusi, Davide
AU  - Mantero, Alfonso
AU  - Mendoza, Emilio
AU  - Morgan, Ben
AU  - Murakami, Kouichi
AU  - Nikitina, Tatiana
AU  - Pandola, Luciano
AU  - Paprocki, P
AU  - Perl, Joseph M.
AU  - Petrović, Ivan M.
AU  - Pia, Maria Grazia
AU  - Pokorski, Witold
AU  - Quesada Molina, Jose Manuel
AU  - Raine, Melanie
AU  - Reis, M.A.
AU  - Ribon, A
AU  - Ristić-Fira, Aleksandra
AU  - Romano, Francesco
AU  - Russo, Giorgio
AU  - Santin, G
AU  - Sasaki, Takashi
AU  - Sawkey, Daren L.
AU  - Shin, Jae-ik
AU  - Strakovsky, Igor I.
AU  - Taborda, Ana
AU  - Tanaka, Satoshi
AU  - Tomé, B
AU  - Toshito, T
AU  - Tran, H.N.
AU  - Truscott, Peter R.
AU  - Urban, Laszlo
AU  - Uzhinsky, Vladimir V.
AU  - Verbeke, Jerome M.
AU  - Verderi, Marc
AU  - Wendt, Brycen L.
AU  - Wenzel, Hans Joachim
AU  - Wright, Dennis Herbert
AU  - Wright, Douglas M.
AU  - Yamashita, Tomohiro
AU  - Yarba, Julia V.
AU  - Yoshida, Hajime
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/8645
AB  - Geant4 is a software toolkit for the simulation of the passage of particles through matter. It is used by a large number of experiments and projects in a variety of application domains, including high energy physics, astrophysics and space science, medical physics and radiation protection. Over the past several years, major changes have been made to the toolkit in order to accommodate the needs of these user communities, and to efficiently exploit the growth of computing power made available by advances in technology. The adaptation of Geant4 to multithreading, advances in physics, detector modeling and visualization, extensions to the toolkit, including biasing and reverse Monte Carlo, and tools for physics and release validation are discussed here.
T2  - Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment
T1  - Recent developments in Geant4
VL  - 835
SP  - 186
EP  - 225
DO  - 10.1016/j.nima.2016.06.125
ER  - 

@article{
author = "Allison, John and Amako, Katsuya and Apostolakis, John and Arce, Pedro and Asai, Makoto and Aso, Tsukasa and Bagli, Enrico and Bagulya, Alexander V. and Banerjee, S and Barrand, Guy C. and Beck, Bret R. and Bogdanov, Aleksei G. and Brandt, Daniel and Brown, Jeremy Michael Cooney and Burkhardt, Helmut and Canal, Philippe and Cano-Ott, Daniel and Chauvie, S and Cho, Kihyeon and Cirrone, Giuseppe Antonio Pablo and Cooperman, Gene D. and Cortés-Giraldo, Miguel Antonio and Cosmo, Gabriele and Cuttone, Giacomo and Depaola, Gerardo O. and Desorgher, Laurent and Dong, Xin and Dotti, Andrea and Elvira, Daniel V. and Folger, Gunter and Francis, Ziad and Galoyan, Aida S. and Garnier, Laurent and Gayer, Marek and Genser, K.L. and Grichine, V.M. and Guatelli, S and Gueye, Paul L.J. and Gumplinger, Peter and Howard, Alexander S. and Hrivnacova, Ivana and Hwang, Soonwook and Incerti, Sebastien and Ivanchenko, A. and Ivanchenko, Vladimir and Jones, F.W. and Jun, S.Y. and Kaitaniemi, Pekka and Karakatsanis, Nicolas and Karamitros, M and Kelsey, M and Kimura, Akinori and Koi, Tatsumi and Kurashige, Hisaya and Lechner, Anton and Lee, Sebyeong and Longo, F and Maire, M and Mancusi, Davide and Mantero, Alfonso and Mendoza, Emilio and Morgan, Ben and Murakami, Kouichi and Nikitina, Tatiana and Pandola, Luciano and Paprocki, P and Perl, Joseph M. and Petrović, Ivan M. and Pia, Maria Grazia and Pokorski, Witold and Quesada Molina, Jose Manuel and Raine, Melanie and Reis, M.A. and Ribon, A and Ristić-Fira, Aleksandra and Romano, Francesco and Russo, Giorgio and Santin, G and Sasaki, Takashi and Sawkey, Daren L. and Shin, Jae-ik and Strakovsky, Igor I. and Taborda, Ana and Tanaka, Satoshi and Tomé, B and Toshito, T and Tran, H.N. and Truscott, Peter R. and Urban, Laszlo and Uzhinsky, Vladimir V. and Verbeke, Jerome M. and Verderi, Marc and Wendt, Brycen L. and Wenzel, Hans Joachim and Wright, Dennis Herbert and Wright, Douglas M. and Yamashita, Tomohiro and Yarba, Julia V. and Yoshida, Hajime",
year = "2016",
abstract = "Geant4 is a software toolkit for the simulation of the passage of particles through matter. It is used by a large number of experiments and projects in a variety of application domains, including high energy physics, astrophysics and space science, medical physics and radiation protection. Over the past several years, major changes have been made to the toolkit in order to accommodate the needs of these user communities, and to efficiently exploit the growth of computing power made available by advances in technology. The adaptation of Geant4 to multithreading, advances in physics, detector modeling and visualization, extensions to the toolkit, including biasing and reverse Monte Carlo, and tools for physics and release validation are discussed here.",
journal = "Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment",
title = "Recent developments in Geant4",
volume = "835",
pages = "186-225",
doi = "10.1016/j.nima.2016.06.125"
}

Allison, J., Amako, K., Apostolakis, J., Arce, P., Asai, M., Aso, T., Bagli, E., Bagulya, A. V., Banerjee, S., Barrand, G. C., Beck, B. R., Bogdanov, A. G., Brandt, D., Brown, J. M. C., Burkhardt, H., Canal, P., Cano-Ott, D., Chauvie, S., Cho, K., Cirrone, G. A. P., Cooperman, G. D., Cortés-Giraldo, M. A., Cosmo, G., Cuttone, G., Depaola, G. O., Desorgher, L., Dong, X., Dotti, A., Elvira, D. V., Folger, G., Francis, Z., Galoyan, A. S., Garnier, L., Gayer, M., Genser, K.L., Grichine, V.M., Guatelli, S., Gueye, P. L.J., Gumplinger, P., Howard, A. S., Hrivnacova, I., Hwang, S., Incerti, S., Ivanchenko, A., Ivanchenko, V., Jones, F.W., Jun, S.Y., Kaitaniemi, P., Karakatsanis, N., Karamitros, M., Kelsey, M., Kimura, A., Koi, T., Kurashige, H., Lechner, A., Lee, S., Longo, F., Maire, M., Mancusi, D., Mantero, A., Mendoza, E., Morgan, B., Murakami, K., Nikitina, T., Pandola, L., Paprocki, P., Perl, J. M., Petrović, I. M., Pia, M. G., Pokorski, W., Quesada Molina, J. M., Raine, M., Reis, M.A., Ribon, A., Ristić-Fira, A., Romano, F., Russo, G., Santin, G., Sasaki, T., Sawkey, D. L., Shin, J., Strakovsky, I. I., Taborda, A., Tanaka, S., Tomé, B., Toshito, T., Tran, H.N., Truscott, P. R., Urban, L., Uzhinsky, V. V., Verbeke, J. M., Verderi, M., Wendt, B. L., Wenzel, H. J., Wright, D. H., Wright, D. M., Yamashita, T., Yarba, J. V.,& Yoshida, H.. (2016). Recent developments in Geant4. in Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, 835, 186-225.
https://doi.org/10.1016/j.nima.2016.06.125

Allison J, Amako K, Apostolakis J, Arce P, Asai M, Aso T, Bagli E, Bagulya AV, Banerjee S, Barrand GC, Beck BR, Bogdanov AG, Brandt D, Brown JMC, Burkhardt H, Canal P, Cano-Ott D, Chauvie S, Cho K, Cirrone GAP, Cooperman GD, Cortés-Giraldo MA, Cosmo G, Cuttone G, Depaola GO, Desorgher L, Dong X, Dotti A, Elvira DV, Folger G, Francis Z, Galoyan AS, Garnier L, Gayer M, Genser K, Grichine V, Guatelli S, Gueye PL, Gumplinger P, Howard AS, Hrivnacova I, Hwang S, Incerti S, Ivanchenko A, Ivanchenko V, Jones F, Jun S, Kaitaniemi P, Karakatsanis N, Karamitros M, Kelsey M, Kimura A, Koi T, Kurashige H, Lechner A, Lee S, Longo F, Maire M, Mancusi D, Mantero A, Mendoza E, Morgan B, Murakami K, Nikitina T, Pandola L, Paprocki P, Perl JM, Petrović IM, Pia MG, Pokorski W, Quesada Molina JM, Raine M, Reis M, Ribon A, Ristić-Fira A, Romano F, Russo G, Santin G, Sasaki T, Sawkey DL, Shin J, Strakovsky II, Taborda A, Tanaka S, Tomé B, Toshito T, Tran H, Truscott PR, Urban L, Uzhinsky VV, Verbeke JM, Verderi M, Wendt BL, Wenzel HJ, Wright DH, Wright DM, Yamashita T, Yarba JV, Yoshida H. Recent developments in Geant4. in Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment. 2016;835:186-225.
doi:10.1016/j.nima.2016.06.125 .

Allison, John, Amako, Katsuya, Apostolakis, John, Arce, Pedro, Asai, Makoto, Aso, Tsukasa, Bagli, Enrico, Bagulya, Alexander V., Banerjee, S, Barrand, Guy C., Beck, Bret R., Bogdanov, Aleksei G., Brandt, Daniel, Brown, Jeremy Michael Cooney, Burkhardt, Helmut, Canal, Philippe, Cano-Ott, Daniel, Chauvie, S, Cho, Kihyeon, Cirrone, Giuseppe Antonio Pablo, Cooperman, Gene D., Cortés-Giraldo, Miguel Antonio, Cosmo, Gabriele, Cuttone, Giacomo, Depaola, Gerardo O., Desorgher, Laurent, Dong, Xin, Dotti, Andrea, Elvira, Daniel V., Folger, Gunter, Francis, Ziad, Galoyan, Aida S., Garnier, Laurent, Gayer, Marek, Genser, K.L., Grichine, V.M., Guatelli, S, Gueye, Paul L.J., Gumplinger, Peter, Howard, Alexander S., Hrivnacova, Ivana, Hwang, Soonwook, Incerti, Sebastien, Ivanchenko, A., Ivanchenko, Vladimir, Jones, F.W., Jun, S.Y., Kaitaniemi, Pekka, Karakatsanis, Nicolas, Karamitros, M, Kelsey, M, Kimura, Akinori, Koi, Tatsumi, Kurashige, Hisaya, Lechner, Anton, Lee, Sebyeong, Longo, F, Maire, M, Mancusi, Davide, Mantero, Alfonso, Mendoza, Emilio, Morgan, Ben, Murakami, Kouichi, Nikitina, Tatiana, Pandola, Luciano, Paprocki, P, Perl, Joseph M., Petrović, Ivan M., Pia, Maria Grazia, Pokorski, Witold, Quesada Molina, Jose Manuel, Raine, Melanie, Reis, M.A., Ribon, A, Ristić-Fira, Aleksandra, Romano, Francesco, Russo, Giorgio, Santin, G, Sasaki, Takashi, Sawkey, Daren L., Shin, Jae-ik, Strakovsky, Igor I., Taborda, Ana, Tanaka, Satoshi, Tomé, B, Toshito, T, Tran, H.N., Truscott, Peter R., Urban, Laszlo, Uzhinsky, Vladimir V., Verbeke, Jerome M., Verderi, Marc, Wendt, Brycen L., Wenzel, Hans Joachim, Wright, Dennis Herbert, Wright, Douglas M., Yamashita, Tomohiro, Yarba, Julia V., Yoshida, Hajime, "Recent developments in Geant4" in Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, 835 (2016):186-225,
https://doi.org/10.1016/j.nima.2016.06.125 . .

TY  - CONF
AU  - Petković, Vladana
AU  - Keta, Otilija D.
AU  - Vojinović, N.
AU  - Incerti, Sebastien
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9207
AB  - Direct  effects  of  radiation  affect  the  DNA  molecule,  causing  DNAdamage and finally  cell death. We examined the role of DMSO and glycerol as free-radical scavengers in HTB177 cells irradiated with gamma rays. Direct effects of   radiation   were   estimated   through   DNA   double   strand   break   (DSB) quantification  and  cell  survival.  Results  of  this  work  revealed  that  chosen concentration   of   DMSO   exhibit   higher   protective   effect   comparing   to glycerol.
PB  - Society of Physical Chemists of Serbia
C3  - Physical chemistry 2016 : 13th international conference on fundamental and applied aspects of physical chemistry
T1  - Radio-protective effect of DMSO glycerol in human non-small cell lung cancer irradiated with gamma rays
SP  - 447
EP  - 450
UR  - https://hdl.handle.net/21.15107/rcub_vinar_9207
ER  - 

@conference{
author = "Petković, Vladana and Keta, Otilija D. and Vojinović, N. and Incerti, Sebastien and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2016",
abstract = "Direct  effects  of  radiation  affect  the  DNA  molecule,  causing  DNAdamage and finally  cell death. We examined the role of DMSO and glycerol as free-radical scavengers in HTB177 cells irradiated with gamma rays. Direct effects of   radiation   were   estimated   through   DNA   double   strand   break   (DSB) quantification  and  cell  survival.  Results  of  this  work  revealed  that  chosen concentration   of   DMSO   exhibit   higher   protective   effect   comparing   to glycerol.",
publisher = "Society of Physical Chemists of Serbia",
journal = "Physical chemistry 2016 : 13th international conference on fundamental and applied aspects of physical chemistry",
title = "Radio-protective effect of DMSO glycerol in human non-small cell lung cancer irradiated with gamma rays",
pages = "447-450",
url = "https://hdl.handle.net/21.15107/rcub_vinar_9207"
}

Petković, V., Keta, O. D., Vojinović, N., Incerti, S., Petrović, I. M.,& Ristić-Fira, A.. (2016). Radio-protective effect of DMSO glycerol in human non-small cell lung cancer irradiated with gamma rays. in Physical chemistry 2016 : 13th international conference on fundamental and applied aspects of physical chemistry
Society of Physical Chemists of Serbia., 447-450.
https://hdl.handle.net/21.15107/rcub_vinar_9207

Petković V, Keta OD, Vojinović N, Incerti S, Petrović IM, Ristić-Fira A. Radio-protective effect of DMSO glycerol in human non-small cell lung cancer irradiated with gamma rays. in Physical chemistry 2016 : 13th international conference on fundamental and applied aspects of physical chemistry. 2016;:447-450.
https://hdl.handle.net/21.15107/rcub_vinar_9207 .

Petković, Vladana, Keta, Otilija D., Vojinović, N., Incerti, Sebastien, Petrović, Ivan M., Ristić-Fira, Aleksandra, "Radio-protective effect of DMSO glycerol in human non-small cell lung cancer irradiated with gamma rays" in Physical chemistry 2016 : 13th international conference on fundamental and applied aspects of physical chemistry (2016):447-450,
https://hdl.handle.net/21.15107/rcub_vinar_9207 .

TY  - JOUR
AU  - Keta, Otilija D.
AU  - Bulat, Tanja M.
AU  - Golic, Igor
AU  - Incerti, Sebastien
AU  - Korać, Aleksandra
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2016
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/1044
AB  - In most patients with lung cancer radiation treatment is used either as single agent or in combination with radiosensitizing drugs. However, the mechanisms underlying combined therapy and its impact on different modes of cell death have not yet been fully elucidated. We aimed to examine effects of single and combined treatments with gamma-rays and erlotinib on radioresistant CRL-5876 human lung adenocarcinoma cells with particular emphasis on cell death. CRL-5876 cells were treated with gamma-rays and/or erlotinib and changes in cell cycle, DNA repair dynamics, ultrastructure, nuclear morphology and protein expression were monitored at different time points. To reveal the relationship between types of cell death that arise after these treatments, autophagy was blocked with chloroquine. We found that higher dose of gamma-rays causes G2/M arrest while adding of erlotinib to this treatment decreases the number of cells in S phase. Impact of erlotinib on kinetics of disappearance of irradiation-induced DNA double strand breaks is reflected in the increase of residual gamma-H2AX foci after 24 h. gamma-rays provoke cytoprotective autophagy which precedes development of senescence. Erlotinib predominantly induces apoptosis and enlarges the number of apoptotic cells in the irradiated CRL-5876 cells. Chloroquine improved cytotoxicity induced by radiation and erlotinib, increased apoptosis and decreased senescence in the CRL-5876 cells. The results obtained on CRL-5876 cells indicate significant radiosensitizing effect of erlotinib and suggest that chloroquine in the combination with the above treatments may have an additional antitumor effect in lung adenocarcinoma.
T2  - Cell Biology and Toxicology
T1  - The impact of autophagy on cell death modalities in CRL-5876 lung adenocarcinoma cells after their exposure to gamma-rays and/or erlotinib
VL  - 32
IS  - 2
SP  - 83
EP  - 101
DO  - 10.1007/s10565-016-9319-z
ER  - 

@article{
author = "Keta, Otilija D. and Bulat, Tanja M. and Golic, Igor and Incerti, Sebastien and Korać, Aleksandra and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2016",
abstract = "In most patients with lung cancer radiation treatment is used either as single agent or in combination with radiosensitizing drugs. However, the mechanisms underlying combined therapy and its impact on different modes of cell death have not yet been fully elucidated. We aimed to examine effects of single and combined treatments with gamma-rays and erlotinib on radioresistant CRL-5876 human lung adenocarcinoma cells with particular emphasis on cell death. CRL-5876 cells were treated with gamma-rays and/or erlotinib and changes in cell cycle, DNA repair dynamics, ultrastructure, nuclear morphology and protein expression were monitored at different time points. To reveal the relationship between types of cell death that arise after these treatments, autophagy was blocked with chloroquine. We found that higher dose of gamma-rays causes G2/M arrest while adding of erlotinib to this treatment decreases the number of cells in S phase. Impact of erlotinib on kinetics of disappearance of irradiation-induced DNA double strand breaks is reflected in the increase of residual gamma-H2AX foci after 24 h. gamma-rays provoke cytoprotective autophagy which precedes development of senescence. Erlotinib predominantly induces apoptosis and enlarges the number of apoptotic cells in the irradiated CRL-5876 cells. Chloroquine improved cytotoxicity induced by radiation and erlotinib, increased apoptosis and decreased senescence in the CRL-5876 cells. The results obtained on CRL-5876 cells indicate significant radiosensitizing effect of erlotinib and suggest that chloroquine in the combination with the above treatments may have an additional antitumor effect in lung adenocarcinoma.",
journal = "Cell Biology and Toxicology",
title = "The impact of autophagy on cell death modalities in CRL-5876 lung adenocarcinoma cells after their exposure to gamma-rays and/or erlotinib",
volume = "32",
number = "2",
pages = "83-101",
doi = "10.1007/s10565-016-9319-z"
}

Keta, O. D., Bulat, T. M., Golic, I., Incerti, S., Korać, A., Petrović, I. M.,& Ristić-Fira, A.. (2016). The impact of autophagy on cell death modalities in CRL-5876 lung adenocarcinoma cells after their exposure to gamma-rays and/or erlotinib. in Cell Biology and Toxicology, 32(2), 83-101.
https://doi.org/10.1007/s10565-016-9319-z

Keta OD, Bulat TM, Golic I, Incerti S, Korać A, Petrović IM, Ristić-Fira A. The impact of autophagy on cell death modalities in CRL-5876 lung adenocarcinoma cells after their exposure to gamma-rays and/or erlotinib. in Cell Biology and Toxicology. 2016;32(2):83-101.
doi:10.1007/s10565-016-9319-z .

Keta, Otilija D., Bulat, Tanja M., Golic, Igor, Incerti, Sebastien, Korać, Aleksandra, Petrović, Ivan M., Ristić-Fira, Aleksandra, "The impact of autophagy on cell death modalities in CRL-5876 lung adenocarcinoma cells after their exposure to gamma-rays and/or erlotinib" in Cell Biology and Toxicology, 32, no. 2 (2016):83-101,
https://doi.org/10.1007/s10565-016-9319-z . .

TY  - JOUR
AU  - Bernal, Mario A.
AU  - Bordage, Marie Claude
AU  - Brown, Jeremy Michael Cooney
AU  - Davídková, Marie
AU  - Delage, E.
AU  - El Bitar, Ziad Ei
AU  - Enger, Shirin A.
AU  - Francis, Ziad
AU  - Guatelli, Susanna
AU  - Ivanchenko, Vladimir N.
AU  - Karamitros, Mathieu
AU  - Kyriakou, Ioanna
AU  - Maigne, Lydia
AU  - Meylan, Sylvain
AU  - Murakami, Kouichi
AU  - Okada, Shogo
AU  - Payno, H.
AU  - Perrot, Yann
AU  - Petrović, Ivan M.
AU  - Pham, Q. T.
AU  - Ristić-Fira, Aleksandra
AU  - Sasaki, Takashi
AU  - Stepan, Vaclav
AU  - Tran, Ngoc Hoang
AU  - Villagrasa, Carmen
AU  - Incerti, Sebastien
PY  - 2015
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/859
AB  - Understanding the fundamental mechanisms involved in the induction of biological damage by ionizing radiation remains a major challenge of todays radiobiology research. The Monte Carlo simulation of physical, physicochemical and chemical processes involved may provide a powerful tool for the simulation of early damage induction. The Geant4-DNA extension of the general purpose Monte Carlo Geant4 simulation toolkit aims to provide the scientific community with an open source access platform for the mechanistic simulation of such early damage. This paper presents the most recent review of the Geant4-DNA extension, as available to Geant4 users since June 2015 (release 10.2 Beta). In particular, the review includes the description of new physical models for the description of electron elastic and inelastic interactions in liquid water, as well as new examples dedicated to the simulation of physicochemical and chemical stages of water radiolysis. Several implementations of geometrical models of biological targets are presented as well, and the list of Geant4-DNA examples is described.
T2  - Physica Medica
T1  - Track structure modeling in liquid water: A review of the Geant4-DNA very low energy extension of the Geant4 Monte Carlo simulation toolkit
VL  - 31
IS  - 8
SP  - 861
EP  - 874
DO  - 10.1016/j.ejmp.2015.10.087
ER  - 

@article{
author = "Bernal, Mario A. and Bordage, Marie Claude and Brown, Jeremy Michael Cooney and Davídková, Marie and Delage, E. and El Bitar, Ziad Ei and Enger, Shirin A. and Francis, Ziad and Guatelli, Susanna and Ivanchenko, Vladimir N. and Karamitros, Mathieu and Kyriakou, Ioanna and Maigne, Lydia and Meylan, Sylvain and Murakami, Kouichi and Okada, Shogo and Payno, H. and Perrot, Yann and Petrović, Ivan M. and Pham, Q. T. and Ristić-Fira, Aleksandra and Sasaki, Takashi and Stepan, Vaclav and Tran, Ngoc Hoang and Villagrasa, Carmen and Incerti, Sebastien",
year = "2015",
abstract = "Understanding the fundamental mechanisms involved in the induction of biological damage by ionizing radiation remains a major challenge of todays radiobiology research. The Monte Carlo simulation of physical, physicochemical and chemical processes involved may provide a powerful tool for the simulation of early damage induction. The Geant4-DNA extension of the general purpose Monte Carlo Geant4 simulation toolkit aims to provide the scientific community with an open source access platform for the mechanistic simulation of such early damage. This paper presents the most recent review of the Geant4-DNA extension, as available to Geant4 users since June 2015 (release 10.2 Beta). In particular, the review includes the description of new physical models for the description of electron elastic and inelastic interactions in liquid water, as well as new examples dedicated to the simulation of physicochemical and chemical stages of water radiolysis. Several implementations of geometrical models of biological targets are presented as well, and the list of Geant4-DNA examples is described.",
journal = "Physica Medica",
title = "Track structure modeling in liquid water: A review of the Geant4-DNA very low energy extension of the Geant4 Monte Carlo simulation toolkit",
volume = "31",
number = "8",
pages = "861-874",
doi = "10.1016/j.ejmp.2015.10.087"
}

Bernal, M. A., Bordage, M. C., Brown, J. M. C., Davídková, M., Delage, E., El Bitar, Z. E., Enger, S. A., Francis, Z., Guatelli, S., Ivanchenko, V. N., Karamitros, M., Kyriakou, I., Maigne, L., Meylan, S., Murakami, K., Okada, S., Payno, H., Perrot, Y., Petrović, I. M., Pham, Q. T., Ristić-Fira, A., Sasaki, T., Stepan, V., Tran, N. H., Villagrasa, C.,& Incerti, S.. (2015). Track structure modeling in liquid water: A review of the Geant4-DNA very low energy extension of the Geant4 Monte Carlo simulation toolkit. in Physica Medica, 31(8), 861-874.
https://doi.org/10.1016/j.ejmp.2015.10.087

Bernal MA, Bordage MC, Brown JMC, Davídková M, Delage E, El Bitar ZE, Enger SA, Francis Z, Guatelli S, Ivanchenko VN, Karamitros M, Kyriakou I, Maigne L, Meylan S, Murakami K, Okada S, Payno H, Perrot Y, Petrović IM, Pham QT, Ristić-Fira A, Sasaki T, Stepan V, Tran NH, Villagrasa C, Incerti S. Track structure modeling in liquid water: A review of the Geant4-DNA very low energy extension of the Geant4 Monte Carlo simulation toolkit. in Physica Medica. 2015;31(8):861-874.
doi:10.1016/j.ejmp.2015.10.087 .

Bernal, Mario A., Bordage, Marie Claude, Brown, Jeremy Michael Cooney, Davídková, Marie, Delage, E., El Bitar, Ziad Ei, Enger, Shirin A., Francis, Ziad, Guatelli, Susanna, Ivanchenko, Vladimir N., Karamitros, Mathieu, Kyriakou, Ioanna, Maigne, Lydia, Meylan, Sylvain, Murakami, Kouichi, Okada, Shogo, Payno, H., Perrot, Yann, Petrović, Ivan M., Pham, Q. T., Ristić-Fira, Aleksandra, Sasaki, Takashi, Stepan, Vaclav, Tran, Ngoc Hoang, Villagrasa, Carmen, Incerti, Sebastien, "Track structure modeling in liquid water: A review of the Geant4-DNA very low energy extension of the Geant4 Monte Carlo simulation toolkit" in Physica Medica, 31, no. 8 (2015):861-874,
https://doi.org/10.1016/j.ejmp.2015.10.087 . .

TY  - JOUR
AU  - Keta, Otilija D.
AU  - Todorović, Danijela V.
AU  - Popović, Nataša M.
AU  - Korićanac, Lela
AU  - Cuttone, Giacomo
AU  - Petrović, Ivan M.
AU  - Ristić-Fira, Aleksandra
PY  - 2014
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/5447
AB  - Introduction: Proton radiation offers physical advantages over conventional radiation. Radiosensitivity of human 59M ovarian cancer and HTB140 melanoma cells was investigated after exposure to gamma-rays and protons. Material and methods: Irradiations were performed in the middle of a 62 MeV therapeutic proton spread out Bragg peak with doses ranging from 2 to 16 Gy. The mean energy of protons was 34.88+/-2.15 MeV, corresponding to the linear energy transfer of 4.7+/-0.2 keV/mu m. Irradiations with gamma-rays were performed using the same doses. Viability, proliferation and survival were assessed 7 days after both types of irradiation while analyses of cell cycle and apoptosis were performed 48 h after irradiation. Results: Results showed that gamma-rays and protons reduced the number of viable cells for both cell lines, with stronger inactivation achieved after irradiation with protons. Surviving fractions for 59M were 0.91+/-0.01 for gamma-rays and 0.81+/-0.01 for protons, while those for HTB140 cells were 0.93+/-0.01 for gamma-rays and 0.86+/-0.01 for protons. Relative biological effectiveness of protons, being 2.47+/-0.22 for 59M and 2.08+/-0.36 for HTB140, indicated that protons provoked better cell elimination than gamma-rays. After proton irradiation proliferation capacity of the two cell lines was slightly higher as compared to gamma-rays. Proliferation was higher for 59M than for HTB140 cells after both types of irradiation. Induction of apoptosis and G2 arrest detected after proton irradiation were more prominent in 59M cells. Conclusions: The obtained results suggest that protons exert better antitumour effects on ovarian carcinoma and melanoma cells than gamma-rays. The dissimilar response of these cells to radiation is related to their different features.
T2  - Archives of Medical Science
T1  - Radiosensitivity of human ovarian carcinoma and melanoma cells to gamma-rays and protons
VL  - 10
IS  - 3
SP  - 578
EP  - 586
DO  - 10.5114/aoms.2014.43751
ER  - 

@article{
author = "Keta, Otilija D. and Todorović, Danijela V. and Popović, Nataša M. and Korićanac, Lela and Cuttone, Giacomo and Petrović, Ivan M. and Ristić-Fira, Aleksandra",
year = "2014",
abstract = "Introduction: Proton radiation offers physical advantages over conventional radiation. Radiosensitivity of human 59M ovarian cancer and HTB140 melanoma cells was investigated after exposure to gamma-rays and protons. Material and methods: Irradiations were performed in the middle of a 62 MeV therapeutic proton spread out Bragg peak with doses ranging from 2 to 16 Gy. The mean energy of protons was 34.88+/-2.15 MeV, corresponding to the linear energy transfer of 4.7+/-0.2 keV/mu m. Irradiations with gamma-rays were performed using the same doses. Viability, proliferation and survival were assessed 7 days after both types of irradiation while analyses of cell cycle and apoptosis were performed 48 h after irradiation. Results: Results showed that gamma-rays and protons reduced the number of viable cells for both cell lines, with stronger inactivation achieved after irradiation with protons. Surviving fractions for 59M were 0.91+/-0.01 for gamma-rays and 0.81+/-0.01 for protons, while those for HTB140 cells were 0.93+/-0.01 for gamma-rays and 0.86+/-0.01 for protons. Relative biological effectiveness of protons, being 2.47+/-0.22 for 59M and 2.08+/-0.36 for HTB140, indicated that protons provoked better cell elimination than gamma-rays. After proton irradiation proliferation capacity of the two cell lines was slightly higher as compared to gamma-rays. Proliferation was higher for 59M than for HTB140 cells after both types of irradiation. Induction of apoptosis and G2 arrest detected after proton irradiation were more prominent in 59M cells. Conclusions: The obtained results suggest that protons exert better antitumour effects on ovarian carcinoma and melanoma cells than gamma-rays. The dissimilar response of these cells to radiation is related to their different features.",
journal = "Archives of Medical Science",
title = "Radiosensitivity of human ovarian carcinoma and melanoma cells to gamma-rays and protons",
volume = "10",
number = "3",
pages = "578-586",
doi = "10.5114/aoms.2014.43751"
}

Keta, O. D., Todorović, D. V., Popović, N. M., Korićanac, L., Cuttone, G., Petrović, I. M.,& Ristić-Fira, A.. (2014). Radiosensitivity of human ovarian carcinoma and melanoma cells to gamma-rays and protons. in Archives of Medical Science, 10(3), 578-586.
https://doi.org/10.5114/aoms.2014.43751

Keta OD, Todorović DV, Popović NM, Korićanac L, Cuttone G, Petrović IM, Ristić-Fira A. Radiosensitivity of human ovarian carcinoma and melanoma cells to gamma-rays and protons. in Archives of Medical Science. 2014;10(3):578-586.
doi:10.5114/aoms.2014.43751 .

Keta, Otilija D., Todorović, Danijela V., Popović, Nataša M., Korićanac, Lela, Cuttone, Giacomo, Petrović, Ivan M., Ristić-Fira, Aleksandra, "Radiosensitivity of human ovarian carcinoma and melanoma cells to gamma-rays and protons" in Archives of Medical Science, 10, no. 3 (2014):578-586,
https://doi.org/10.5114/aoms.2014.43751 . .