Force spectroscopy analysis in polymer translocation

Fiasconaro, Alessandro; Falo, Fernando

doi:10.1103/physreve.98.062501

Cited by 3 publications

(4 citation statements)

References 56 publications

(68 reference statements)

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“…The dynamics of an end-pulled polymer are different than those of a driven polymer [ 69 , 85 , 95 , 160 , 161 , 162 ]. Fiasconaro and Falo [ 163 ] recorded the force trajectory of an end-pulled polymer (shown in Figure 4 ), the analysis of which renders an estimate of the limit force to allow the translocation of each monomer in the chain. They further studied the effect of the flexibility of the pore on the translocation of an end-pulled polymer, and a resonant-like behavior was observed as a function of the longitudinal elastic parameter of the pore [ 164 ].…”

Section: Controlling the Speed Of Translocationmentioning

confidence: 99%

“… Force trajectory as a function of time for a polymer with 32 monomers. For other system parameters, kindly see the work of Fiasconaro and Falo [ 163 ]. The blue (above the curve) and green (below the curve) arrows indicate, respectively, the time of the last and first entrance of the monomer (indexed above the blue arrow) inside the pore.…”

Section: Figurementioning

confidence: 99%

“…The three insets correspond to the mean waiting entrance times, the total time spent to enter, and the mean force at the last entrance as a function of the number of monomers that enter the pore, respectively. Reprinted with permission from Fiasconaro and Falo [ 163 ] copyright 2018 by the American Physical Society .…”

Section: Figurementioning

confidence: 99%

See 2 more Smart Citations

Polymer Translocation and Nanopore Sequencing: A Review of Advances and Challenges

Singh

Chauhan

Bharadwaj

et al. 2023

IJMS

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Various biological processes involve the translocation of macromolecules across nanopores; these pores are basically protein channels embedded in membranes. Understanding the mechanism of translocation is crucial to a range of technological applications, including DNA sequencing, single molecule detection, and controlled drug delivery. In this spirit, numerous efforts have been made to develop polymer translocation-based sequencing devices, these efforts include findings and insights from theoretical modeling, simulations, and experimental studies. As much as the past and ongoing studies have added to the knowledge, the practical realization of low-cost, high-throughput sequencing devices, however, has still not been realized. There are challenges, the foremost of which is controlling the speed of translocation at the single monomer level, which remain to be addressed in order to use polymer translocation-based methods for sensing applications. In this article, we review the recent studies aimed at developing control over the dynamics of polymer translocation through nanopores.

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Section: Controlling the Speed Of Translocationmentioning

confidence: 99%

Section: Figurementioning

confidence: 99%

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Polymer Translocation and Nanopore Sequencing: A Review of Advances and Challenges

Singh

Chauhan

Bharadwaj

et al. 2023

IJMS

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“…The end-pulling mechanism can be useful to explore and check the mathematical aspects of the single barrier translocation [37], as well as for the detailed analysis of monomers stepping into the pore, especially for sequencing analysis purposes [38,39].…”

Section: Introductionmentioning

confidence: 99%

Polymer translocation driven by longitudinal and transversal time-dependent end-pulling forces

Sáinz-Agost,

Falo,

Fiasconaro

2023

Phys. Rev. E

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In this article, we simulate the translocation of a semiflexible homopolymer through an extended pore, driven by both a constant and a time-dependent end-pulled force, employing a model introduced in previous studies. The time dependence is simplistically modeled as a cosine function, and we distinguish between two scenarios for the driving--longitudinal force and transversal force-depending on the relative orientation of the force, parallel or perpendicular, respectively, with respect to the pore axis. Besides some key differences between the two drivings, the mean translocation times present a large minimum region as a function of the frequency of the force that is typical of the resonant activation effect. The presence of the minimum is independent on the elastic characteristics of the polymeric chains and reveals a linear relation between the optimum mean translocation time and the corresponding period of the driving. The mean translocation times show different scaling exponents with the polymer length for different flexibilities. Lastly, we derive an analytical expression of the mean translocation time for low driving frequency, which clearly agrees with the simulations.

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