Can Monte Carlo track structure codes reveal reaction mechanism in DNA damage and improve radiation therapy?

Nikjoo, Hooshang; Emfietzoglou, Dimitris; Watanabe, Ritsuko; Uehara, Shuzo

doi:10.1016/j.radphyschem.2008.05.043

Cited by 58 publications

(41 citation statements)

References 90 publications

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“…2,3 Other relevant targets, like molecular DNA, alone or bound into complex structures with proteins, can be superimposed over the liquid water track structure 9 and the direct effect of radiation estimated from the energy deposited within their molecular volume. 9,10 Recent, detailed MC calculations of clustered DNA damage (i.e., combinations of multiple strand breaks and base lesions) include cross section data for the DNA (and/or its sub-units). 11 Since MC simulations follow events down to the lowest energies and since low energy electrons (LEEs) with energies < 30 eV represent the majority of SE, simulation accuracy strongly depends on LEE-molecule scattering cross sections.…”

Section: Introductionmentioning

confidence: 99%

“…11 Since MC simulations follow events down to the lowest energies and since low energy electrons (LEEs) with energies < 30 eV represent the majority of SE, simulation accuracy strongly depends on LEE-molecule scattering cross sections. Ionization and excitation cross sections at high electron energies (E > 10 keV) are calculable via the plane wave Born approximation 10 or by modeling the dielectric response function. 2 At lower energies semiempirical models (often using chemical structure codes such as GAMESS and GAUSSIAN) have been used to calculate total inelastic electron impact cross sections for bio-organic compounds such as DNA and RNA bases and other DNA subunits.…”

Section: Introductionmentioning

confidence: 99%

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Absolute cross section for loss of supercoiled topology induced by 10 eV electrons in highly uniform /DNA/1,3-diaminopropane films deposited on highly ordered pyrolitic graphite

Boulanouar

Fromm

Bass

et al. 2013

The Journal of Chemical Physics

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It was recently shown that the affinity of doubly charged, 1-3 diaminopropane (Dap 2+ ) for DNA permits the growth on highly ordered pyrolitic graphite (HOPG) substrates, of plasmid DNA films, of known uniform thickness [O. Boulanouar, A. Khatyr, G. Herlem, F. Palmino, L. Sanche, and M. Fromm, J. Phys. Chem. C 115, 21291-21298 (2011)]. Post-irradiation analysis by electrophoresis of such targets confirms that electron impact at 10 eV produces a maximum in the yield of single strand breaks that can be associated with the formation of a DNA − transient anion. Using a welladapted deterministic survival model for the variation of electron damage with fluence and film thickness, we have determined an absolute cross section for strand-break damage by 10 eV electrons and inelastic scattering attenuation length in DNA-Dap complex films.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Absolute cross section for loss of supercoiled topology induced by 10 eV electrons in highly uniform /DNA/1,3-diaminopropane films deposited on highly ordered pyrolitic graphite

Boulanouar

Fromm

Bass

et al. 2013

The Journal of Chemical Physics

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“…Using these electron spectra, the DSB induction per Gray per gigabase pair (Gy −1 Gbp −1 ) was calculated. MCDS parameters were tuned to obtain the minimum difference with measurements and track structure simulations [16,18,29]. MCDS uses typical mammalian cell for DNA damage calculations with including oxygen and chemical fixation [24].…”

Section: Methodsmentioning

confidence: 99%

The effect of energy spectrum change on DNA damage in and out of field in 10-MV clinical photon beams

Ezzati

Xiao

Sohrabpour

et al. 2014

Med Biol Eng Comput

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The aim of this study was to quantify the DNA damage induced in a clinical megavoltage photon beam at various depths in and out of the field. MCNPX was used to simulate 10 × 10 and 20 × 20 cm(2) 10-MV photon beams from a clinical linear accelerator. Photon and electron spectra were collected in a water phantom at depths of 2.5, 12.5 and 22.5 cm on the central axis and at off-axis points out to 10 cm. These spectra were used as an input to a validated microdosimetric Monte Carlo code, MCDS, to calculate the RBE of induced DSB in DNA at points in and out of the primary radiation field at three depths. There was an observable difference in the energy spectra for photons and electrons for points in the primary radiation field and those points out of field. In the out-of-field region, the mean energy for the photon and electron spectra decreased by a factor of about six and three from the in-field mean energy, respectively. Despite the differences in spectra and mean energy, the change in RBE was <1 % from the in-field region to the out-of-field region at any depth. There was no significant change in RBE regardless of the location in the phantom. Although there are differences in both the photon and electron spectra, these changes do not correlate with a change in RBE in a clinical MV photon beam as the electron spectra are dominated by electrons with energies >20 keV.

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“…The success of the track structure codes resulted from insights from the observation that the micro and nano scale pattern of radiation track and associated energy deposition has a crucial role in the determination of the probability of formation of critical biological lesions [14]. The importance of modelling the electron interactions down to eV energies with nanoscale resolution was shown by Nikjoo and Goodhead [15].…”

Section: Introductionmentioning

confidence: 99%

Review of Geant4-DNA applications for micro and nanoscale simulations

et al. 2016

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Emerging radiotherapy treatments including targeted particle therapy, hadron therapy or radiosensitisation of cells by high-Z nanoparticles demand the theoretical determination of radiation track structure at the nanoscale. This is essential in order to evaluate radiation damage at the cellular and DNA level. Since 2007, Geant4 offers physics models to describe particle interactions in liquid water at the nanometre level through the Geant4-DNA Package. This package currently provides a complete set of models describing the event-byevent electromagnetic interactions of particles with liquid water, as well as developments for the modelling of water radiolysis. Since its release, Geant4-DNA has been adopted as an investigational tool in kV and MV external beam radiotherapy, hadron therapies using protons and heavy ions, targeted therapies and radiobiology studies. It has been benchmarked with respect to other track structure Monte Carlo codes and, where available, against reference experimental measurements. While Geant4-DNA physics models and radiolysis modelling functionalities have already been described in detail in the literature, this review paper summarises and discusses a selection of representative papers with the aim of providing an overview of a) geometrical descriptions of biological targets down to the DNA size, and b) the full spectrum of current micro-and nano-scale applications of Geant4-DNA. Disciplines Engineering | Science and Technology Studies Publication DetailsIncerti, S., Douglass, M., Penfold, S., Guatelli, S. & Bezak, E. (2016). Review of Geant4-DNA applications for micro and nanoscale simulations. Physica Medica: an international journal devoted to the applications of physics to medicine and biology, 32 (10), 1187-1200. AbstractEmerging radiotherapy treatments including targeted particle therapy, hadron therapy or radiosensitisation of cells by high-Z nanoparticles demand the theoretical determination of radiation track structure at the nanoscale. This is essential in order to evaluate radiation damage at the cellular and DNA level. Since 2007, Geant4 offers physics models to describe particle interactions in liquid water at the nanometre level through the Geant4-DNA Package. This package currently provides a complete set of models describing the event-by-event electromagnetic interactions of particles with liquid water, as well as developments for the modelling of water radiolysis.

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Can Monte Carlo track structure codes reveal reaction mechanism in DNA damage and improve radiation therapy?

Cited by 58 publications

References 90 publications

Absolute cross section for loss of supercoiled topology induced by 10 eV electrons in highly uniform /DNA/1,3-diaminopropane films deposited on highly ordered pyrolitic graphite

Absolute cross section for loss of supercoiled topology induced by 10 eV electrons in highly uniform /DNA/1,3-diaminopropane films deposited on highly ordered pyrolitic graphite

The effect of energy spectrum change on DNA damage in and out of field in 10-MV clinical photon beams

Review of Geant4-DNA applications for micro and nanoscale simulations

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