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  - 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  - 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  - 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 . .