2015
Fast Biological Modeling for Voxel-based Heavy Ion Treatment Planning Using the Mechanistic Repair-Misrepair-Fixation Model and Nuclear Fragment Spectra
Kamp F, Cabal G, Mairani A, Parodi K, Wilkens JJ, Carlson DJ. Fast Biological Modeling for Voxel-based Heavy Ion Treatment Planning Using the Mechanistic Repair-Misrepair-Fixation Model and Nuclear Fragment Spectra. International Journal Of Radiation Oncology • Biology • Physics 2015, 93: 557-568. PMID: 26460998, DOI: 10.1016/j.ijrobp.2015.07.2264.Peer-Reviewed Original ResearchConceptsRelative biological effectivenessCarbon ion therapyCarbon ionsIon therapyHeavy ion treatment planningMonte Carlo code FLUKAPrimary carbon ionsCarbon ion energyRadiation therapy beamsRBE valuesCarbon ion treatment plansRelevant RBE valuesRMF predictionsHeavy ionsIon energyDouble-strand break (DSB) yieldsRMF modelEnergy spectrumTherapy beamsSecondary fragmentsMonte Carlo damage simulationNuclear fragmentsBiological optimizationBiological effectivenessRBE predictionsExtension of TOPAS for the simulation of proton radiation effects considering molecular and cellular endpoints
Polster L, Schuemann J, Rinaldi I, Burigo L, McNamara AL, Stewart RD, Attili A, Carlson DJ, Sato T, Méndez J, Faddegon B, Perl J, Paganetti H. Extension of TOPAS for the simulation of proton radiation effects considering molecular and cellular endpoints. Physics In Medicine And Biology 2015, 60: 5053-5070. PMID: 26061666, PMCID: PMC4511084, DOI: 10.1088/0031-9155/60/13/5053.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsCell LineCricetinaeCricetulusDNA Breaks, Double-StrandedElectronsHumansLinear Energy TransferMonte Carlo MethodProton TherapyProtonsRelative Biological EffectivenessSoftwareConceptsFrequency-mean specific energyProton linear energy transferProton radiation effectsMonte Carlo toolLinear energy transferDelta electronsLineal energyProton RBEBragg peakPhysics parametersRadiobiological experimentsExperimental arrangementEnergy transferTOPASRadiation effectsTrack structureBiological input parametersProton therapyExperimental dataDouble-strand break inductionDNA double-strand break inductionEnergyRBEElectronsSpecific geometry
2013
A molecular dynamics simulation of DNA damage induction by ionizing radiation
Abolfath RM, Carlson DJ, Chen ZJ, Nath R. A molecular dynamics simulation of DNA damage induction by ionizing radiation. Physics In Medicine And Biology 2013, 58: 7143-7157. PMID: 24052159, DOI: 10.1088/0031-9155/58/20/7143.Peer-Reviewed Original ResearchMeSH KeywordsDNADNA Breaks, Double-StrandedDNA DamageHydroxyl RadicalMolecular Dynamics SimulationNucleic Acid ConformationRadiation, IonizingConceptsMolecular dynamics simulationsChemical reactionsDynamics simulationsChemical bond breaksWater moleculesMolecular dynamics softwareHydrogen abstractionHydroxyl free radicalsBond breaksChemical eventsCollection of ionsSingle protonRadicalsLow-energy electronsDNA moleculesProtonsBackbone damageFree radicalsMulti-scale simulationsIonsMoleculesReactionElectronsBroken bondsEnergy electrons
2011
A Mechanism-Based Approach to Predict the Relative Biological Effectiveness of Protons and Carbon Ions in Radiation Therapy
Frese MC, Yu VK, Stewart RD, Carlson DJ. A Mechanism-Based Approach to Predict the Relative Biological Effectiveness of Protons and Carbon Ions in Radiation Therapy. International Journal Of Radiation Oncology • Biology • Physics 2011, 83: 442-450. PMID: 22099045, DOI: 10.1016/j.ijrobp.2011.06.1983.Peer-Reviewed Original ResearchConceptsRelative biological effectivenessCarbon ionsRadiation qualityUniform biological effectIon kinetic energyBiological effectivenessMonte Carlo modelParticle energyRMF modelBragg peakMonte Carlo damage simulation (MCDS) softwareCarlo modelRelevant protonsLinear-quadratic parametersKinetic energyProton relative biological effectivenessProtonsPhysical doseParticle distributionIonsParameter αEnergyRepresentative spreadSOBPPotential biological advantagesEffects of Radiation Quality and Oxygen on Clustered DNA Lesions and Cell Death
Stewart RD, Yu VK, Georgakilas AG, Koumenis C, Park JH, Carlson DJ. Effects of Radiation Quality and Oxygen on Clustered DNA Lesions and Cell Death. Radiation Research 2011, 176: 587-602. PMID: 21823972, DOI: 10.1667/rr2663.1.Peer-Reviewed Original Research
2008
Combined Use of Monte Carlo DNA Damage Simulations and Deterministic Repair Models to Examine Putative Mechanisms of Cell Killing
Carlson DJ, Stewart RD, Semenenko VA, Sandison GA. Combined Use of Monte Carlo DNA Damage Simulations and Deterministic Repair Models to Examine Putative Mechanisms of Cell Killing. Radiation Research 2008, 169: 447-459. PMID: 18363426, DOI: 10.1667/rr1046.1.Peer-Reviewed Original ResearchCell SurvivalDNA Breaks, Double-StrandedDNA RepairHumansLinear Energy TransferMonte Carlo MethodRadiation Tolerance