Atomic Force Microscopy Measurement of DNA Fragment Induced by Heavy Ions

Sui, Li; Ni, Meinan; Guo, Jiyu; Kong, Fuquan; Cai, Mao-cheng; Lu, Xiuqin; Zhou, Ping

doi:10.1088/0256-307x/22/4/064

Cited by 8 publications

(1 citation statement)

References 12 publications

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“…Therefore, one needs a much lower dose in water to achieve effects similar to those with the HEPES buffer. Figure 1, panel a, shows the experimental distribution of fragments and the theoretical fitting for irradiation of plasmids (80% in supercoiled conformation) with 12 C ions at 8 Gy in water [10]. There is, in panel b, another experiment with Ni ions at 3000 Gy, with supercoiled plasmids in HEPES buffer [5].…”

Section: Resultsmentioning

confidence: 99%

Nonextensivity and Tsallis Entropy in DNA Fragmentation Patterns by Ionizing Radiation

Marante¹,

Смирнов²,

Hoyos³

et al. 2012

JMP

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Nonextensive statistical mechanics as in Tsallis formalism was used in this study, along with the dynamical Hamiltonian rod-like DNA model and the maximum entropy criteria for Tsallis’ entropy, so as to obtain length distribution of plasmid fragments, after irradiation with very high doses, assuming that the system reaches metaequilibrium. By intensively working out the Grand Canonical Ensemble (used to take into account the variation of the number of base pairs) a simplified expression for Fragment Size Distribution Function (FSDF) was obtained. This expression is dependent on two parameters only, the Tsallis q value and the minimal length of the fragments. Results obtained from fittings to available experimental data were adequate and the characteristic behavior of the shortest fragments was clearly documented and reproduced by the model, a circumstance never verified from theoretical distributions. The results point to the existence of an entropy which characterizes fragmentation processes and depending only on the q entropic index

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Section: Resultsmentioning

confidence: 99%

Nonextensivity and Tsallis Entropy in DNA Fragmentation Patterns by Ionizing Radiation

Marante¹,

Смирнов²,

Hoyos³

et al. 2012

JMP

View full text Add to dashboard Cite

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Interaction Study between DNA and Histone Proteins on Single-molecule Level using Atomic Force Microscopy

Liu

Wang

Dou

et al. 2014

Chinese Journal of Chemical Physics

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DNA and histone protein are important in the formation of nucleosomal arrays, which are the first packaging level of DNA into a more compact chromatin structure. To characterize the interactions of DNA and histone proteins, we reconstitute nucleosomes using lambda DNA and whole histone proteins by dialysis and perform direct atomic force microscopy (AFM) imaging. Compared with non-specific DNA and histone binding, nucleosomes are formed within the assembled "beads-on-a-string" nucleosomal array by dialysis. These observations facilitate the establishment of the molecular mechanisms of nucleosome and demonstrate the capability of AFM for protein-DNA interaction analysis.

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Combined Effect of Surface Tension, Gravity and van der Waals Force Induced by a Non-Contact Probe Tip on the Shape of Liquid Surface

Bai

Xia

et al. 2005

Chinese Phys. Lett.

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Atomic Force Microscopy Measurement of DNA Fragment Induced by Heavy Ions

Cited by 8 publications

References 12 publications

Nonextensivity and Tsallis Entropy in DNA Fragmentation Patterns by Ionizing Radiation

Nonextensivity and Tsallis Entropy in DNA Fragmentation Patterns by Ionizing Radiation

Interaction Study between DNA and Histone Proteins on Single-molecule Level using Atomic Force Microscopy

Combined Effect of Surface Tension, Gravity and van der Waals Force Induced by a Non-Contact Probe Tip on the Shape of Liquid Surface

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