Sequence dependence of DNA translocation through a nanopore

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A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä
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Date

2008

Department

Department of Applied Physics

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Mcode

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Language

en

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Physical Review Letters, Volume 100, issue 5, pp. 1-4

Abstract

We investigate the dynamics of DNA translocation through a nanopore using 2D Langevin dynamics simulations, focusing on the dependence of the translocation dynamics on the details of DNA sequences. The DNA molecules studied in this work are built from two types of bases A and C, which have been shown previously to have different interactions with the pore. We study DNA with repeating blocks AnCn for various values of n and find that the translocation time depends strongly on the block length 2n as well as on the orientation of which base enters the pore first. Thus, we demonstrate that the measurement of translocation dynamics of DNA through a nanopore can yield detailed information about its structure. We have also found that the periodicity of the block sequences is contained in the periodicity of the residence time of the individual nucleotides inside the pore.

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Keywords

Nanopore, Polymer, Translocation

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DOI

10.1103/PhysRevLett.100.058101

Citation

Luo, K, Ala-Nissila, T, Ying, S C & Bhattacharya, A 2008, 'Sequence dependence of DNA translocation through a nanopore', Physical Review Letters, vol. 100, no. 5, 058101, pp. 1-4. https://doi.org/10.1103/PhysRevLett.100.058101

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https://urn.fi/URN:NBN:fi:aalto-202510087675

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[article-cris] Perustieteiden korkeakoulu / SCI