Criteria for minimal model of driven polymer translocation

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Criteria for minimal model of driven polymer translocation. / Suhonen, Pauli; Kaski, Kimmo; Linna, Riku.

In: Physical Review E, Vol. 90, No. 4, 042702, 2014, p. 1-8.

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@article{9085b109b73442ab8173bda18ad5e68f,
title = "Criteria for minimal model of driven polymer translocation",
abstract = "While the characteristics of the driven translocation for asymptotically long polymers are well understood, this is not the case for finite-sized polymers, which are relevant for real-world experiments and simulation studies. Most notably, the behavior of the exponent α, which describes the scaling of the translocation time with polymer length, when the driving force fp in the pore is changed, is under debate. By Langevin dynamics simulations of regular and modified translocation models using the freely jointed-chain polymer model we find that a previously reported incomplete model, where the trans side and fluctuations were excluded, gives rise to characteristics that are in stark contradiction with those of the complete model, for which α increases with fp. Our results suggest that contribution due to fluctuations is important. We construct a minimal model where dynamics is completely excluded to show that close alignment with a full translocation model can be achieved. Our findings set very stringent requirements for a minimal model that is supposed to describe the driven polymer translocation correctly.",
keywords = "translocation, polymer, dynamics, Langevin, computational physics, translocation, polymer, dynamics, Langevin, computational physics, translocation, polymer, dynamics, Langevin, computational physics",
author = "Pauli Suhonen and Kimmo Kaski and Riku Linna",
year = "2014",
doi = "10.1103/PhysRevE.90.042702",
language = "English",
volume = "90",
pages = "1--8",
journal = "Physical Review E",
issn = "2470-0045",
publisher = "American Physical Society",
number = "4",

}

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TY - JOUR

T1 - Criteria for minimal model of driven polymer translocation

AU - Suhonen, Pauli

AU - Kaski, Kimmo

AU - Linna, Riku

PY - 2014

Y1 - 2014

N2 - While the characteristics of the driven translocation for asymptotically long polymers are well understood, this is not the case for finite-sized polymers, which are relevant for real-world experiments and simulation studies. Most notably, the behavior of the exponent α, which describes the scaling of the translocation time with polymer length, when the driving force fp in the pore is changed, is under debate. By Langevin dynamics simulations of regular and modified translocation models using the freely jointed-chain polymer model we find that a previously reported incomplete model, where the trans side and fluctuations were excluded, gives rise to characteristics that are in stark contradiction with those of the complete model, for which α increases with fp. Our results suggest that contribution due to fluctuations is important. We construct a minimal model where dynamics is completely excluded to show that close alignment with a full translocation model can be achieved. Our findings set very stringent requirements for a minimal model that is supposed to describe the driven polymer translocation correctly.

AB - While the characteristics of the driven translocation for asymptotically long polymers are well understood, this is not the case for finite-sized polymers, which are relevant for real-world experiments and simulation studies. Most notably, the behavior of the exponent α, which describes the scaling of the translocation time with polymer length, when the driving force fp in the pore is changed, is under debate. By Langevin dynamics simulations of regular and modified translocation models using the freely jointed-chain polymer model we find that a previously reported incomplete model, where the trans side and fluctuations were excluded, gives rise to characteristics that are in stark contradiction with those of the complete model, for which α increases with fp. Our results suggest that contribution due to fluctuations is important. We construct a minimal model where dynamics is completely excluded to show that close alignment with a full translocation model can be achieved. Our findings set very stringent requirements for a minimal model that is supposed to describe the driven polymer translocation correctly.

KW - translocation, polymer, dynamics, Langevin, computational physics

KW - translocation, polymer, dynamics, Langevin, computational physics

KW - translocation

KW - polymer

KW - dynamics

KW - Langevin

KW - computational physics

U2 - 10.1103/PhysRevE.90.042702

DO - 10.1103/PhysRevE.90.042702

M3 - Article

VL - 90

SP - 1

EP - 8

JO - Physical Review E

JF - Physical Review E

SN - 2470-0045

IS - 4

M1 - 042702

ER -

ID: 940042