Statistical mechanics of DNA rupture: Theory and simulations

Nath, Shesh; Modi, Tushar; Mishra, Rakesh; Giri, Debasis; Mandal, Bhabani Prasad; Kumar, Sanjay

doi:10.1063/1.4824796

Cited by 9 publications

(12 citation statements)

References 40 publications

(85 reference statements)

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“…where f 0 is the stretching force of the end base pairs, Q is the backbone spring constant and δ 0 is the initial base pair separation (with fitting parameters of 4 pN, 30 N m −1 and 0.2 nm, respectively 34 35 36 ).…”

Section: Resultsmentioning

confidence: 99%

Piezoresistivity in single DNA molecules

et al. 2015

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Piezoresistivity is a fundamental property of materials that has found many device applications. Here we report piezoresistivity in double helical DNA molecules. By studying the dependence of molecular conductance and piezoresistivity of single DNA molecules with different sequences and lengths, and performing molecular orbital calculations, we show that the piezoresistivity of DNA is caused by force-induced changes in the π–π electronic coupling between neighbouring bases, and in the activation energy of hole hopping. We describe the results in terms of thermal activated hopping model together with the ladder-based mechanical model for DNA proposed by de Gennes.

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Section: Resultsmentioning

confidence: 99%

Piezoresistivity in single DNA molecules

et al. 2015

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“…The model and method adopted in Ref. [16] can describe equilibrium and non-equilibrium aspects of DNA quite well [24][25][26][27][28], but simulations of longer chain length appear to be computationally challenging. An analytical solution of this model is not easy because of the many degrees of freedom involved.…”

mentioning

confidence: 99%

Periodically driven DNA: Theory and simulation

Kumar

Janke

2016

Phys. Rev. E

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We propose a generic model of driven DNA under the influence of an oscillatory force of amplitude F and frequency ν and show the existence of a dynamical transition for a chain of finite length. We find that the area of the hysteresis loop, A_{loop}, scales with the same exponents as observed in a recent study based on a much more detailed model. However, towards the true thermodynamic limit, the high-frequency scaling regime extends to lower frequencies for larger chain length L and the system has only one scaling (A_{loop}≈ν^{-1}F^{2}). Expansion of an analytical expression for A_{loop} obtained for the model system in the low-force regime revealed that there is a new scaling exponent associated with force (A_{loop}≈ν^{-1}F^{2.5}), which has been validated by high-precision numerical calculation. By a combination of analytical and numerical arguments, we also deduce that for large but finite L, the exponents are robust and independent of temperature and friction coefficient.

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“…Indeed, it has been shown that DNA undergoes a structural transition when mechanically stretched [ 90 , 91 , 92 ]. This has been attributed to either a reversible configuration change from native form (B-DNA) to stretched form (S-DNA) or irreversible force-induced melting [ 93 , 94 , 95 , 96 , 97 ]. As charge transport in dsDNA molecules is mediated by the π-π stacking interactions between neighboring base pairs, mechanically stretching DNA is believed to seriously disrupt the π-π stacking interactions and therefore leads to a large change in CT of DNA [ 98 ].…”

Section: Charge Transport Through Native Dna Moleculesmentioning

confidence: 99%

DNA-Based Single-Molecule Electronics: From Concept to Function

Wang

2018

JFB

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Beyond being the repository of genetic information, DNA is playing an increasingly important role as a building block for molecular electronics. Its inherent structural and molecular recognition properties render it a leading candidate for molecular electronics applications. The structural stability, diversity and programmability of DNA provide overwhelming freedom for the design and fabrication of molecular-scale devices. In the past two decades DNA has therefore attracted inordinate amounts of attention in molecular electronics. This review gives a brief survey of recent experimental progress in DNA-based single-molecule electronics with special focus on single-molecule conductance and I–V characteristics of individual DNA molecules. Existing challenges and exciting future opportunities are also discussed.

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Statistical mechanics of DNA rupture: Theory and simulations

Cited by 9 publications

References 40 publications

Piezoresistivity in single DNA molecules

Piezoresistivity in single DNA molecules

Periodically driven DNA: Theory and simulation

DNA-Based Single-Molecule Electronics: From Concept to Function

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