Green's Function Coupled Cluster Simulation of the Near-valence Ionizations of DNA-fragments [PDF]
J. Chem. Phys. 152, 011101 (2020), 2019 Accurate description of the ionization process in DNA is crucial to the understanding of the DNA damage under exposure to ionizing radiation, and the exploration of the potential application of DNA strands in nano-electronics. In this work, by employing our recently developed Green's function coupled-cluster (GFCC) library on supercomputing facilities,
arxiv +1 more source
A spatial measure-valued model for radiation-induced DNA damage kinetics and repair under protracted irradiation condition [PDF]
arXiv, 2023 In the present work, we develop a general spatial stochastic model to describe the formation and repair of radiation-induced DNA damage. The model is described mathematically as a measure-valued particle-based stochastic system and extends in several directions the model developed in Cordoni et.al. 2021, Cordoni et.al. 2022a, Cordoni et.al. 2022b.
arxiv
A mini-review of the diffusion dynamics of DNA-binding proteins: Experiments and models [PDF]
, 2020 In the course of various biological processes, specific DNA-binding proteins must find a particular target sequence/protein or a damaged site on the DNA efficiently. DNA-binding proteins perform this task based on diffusion. Yet, investigations over recent decades have found that the diffusion dynamics of DNA-binding proteins are generally complicated ...
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Detailed analysis of the cell-inactivation mechanism by accelerated protons and light ions [PDF]
Phys. Med. Biol. 51 (2006) 1185-1199, 2005 Published survival data for V79 cells irradiated by monoenergetic protons, helium-3, carbon, and oxygen ions and for CHO cells irradiated by carbon ions have been analyzed using the probabilistic two-stage model of cell inactivation. Three different classes of DNA damages formed by traversing particles have been distinguished, namely severe single ...
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Double strand breaks in DNA resulting from double-electron-emission events [PDF]
, 2012 A mechanism of double strand breaking (DSB) in DNA due to the action of two electrons is considered. These are the electrons produced in the vicinity of DNA molecules due to ionization of water molecules with a consecutive emission of two electrons, making such a mechanism possible.
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Two-color spectroscopy of UV excited ssDNA complex with a single-wall nanotube probe: Fast nucleobase autoionization mechanism [PDF]
Nano Research 9, 571-583 (2015), 2015 DNA autoionization is a fundamental process wherein UV-photoexcited nucleobases dissipate energy by charge transfer to the environment without undergoing chemical damage. Here, single-wall carbon nanotubes (SWNT) are explored as a photoluminescent reporter for studying the mechanism and rates of DNA autoionization.
arxiv +1 more source
On the biophysical interpretation of lethal DNA lesions induced by ionizing radiation [PDF]
arXiv, 2005 Although DNA damage is widely viewed as a critical target for the induction of cell killing by ionizing radiation, the exact nature of DNA damage responsible for these effects is unknown. To address this issue, the probability of forming lethal damage by single proton tracks, derived from published survival data for Chinese hamster V79 cells irradiated
arxiv
Compound Poisson Statistics and Models of Clustering of Radiation Induced DNA Double Strand Breaks [PDF]
arXiv, 2000 According to the experimental evidence damage induced by densely ionizing radiation in mammalian cells is distributed along the DNA molecule in the form of clusters. The most critical constituent of DNA damage are double-strand breaks (DSBs) which are formed when the breaks occur in both DNA strands and are directly opposite or separated by only a few ...
arxiv
A p53 Oscillator Model of DNA Break Repair Control [PDF]
arXiv, 2005 The transcription factor p53 is an important regulator of cell fate. Mutations in p53 gene are associated with many cancers. In response to signals such as DNA damage, p53 controls the transcription of a series of genes that cause cell cycle arrest during which DNA damage is repaired, or triggers programmed cell death that eliminates possibly cancerous
arxiv
Monte Carlo Simulations of DNA Damage and Cellular Response to Hadron Irradiation [PDF]
arXiv, 2019 Numerical simulations are performed on a stochastic model based on Monte Carlo damage simulation process and Markov Chain Monte Carlo techniques to investigate the formation and evaluation of isolated and multiple DNA damage and cellular survival by light ionizing radiation in a colony of tumour cells.
arxiv