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Updated: May 18, 2026

Fine-tuning the Size and Minimizing the Noise of Solid-state Nanopores
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Effective driving force applied on DNA inside a solid-state nanopore.

Bo Lu1, David P Hoogerheide, Qing Zhao

  • 1State Key Laboratory for Mesoscopic Physics and Electron Microscopy Laboratory, School of Physics, Peking University, Beijing 100871, People's Republic of China.

Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics
|September 26, 2012
PubMed
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Understanding the electrophoretic force on DNA in nanopores is key for DNA sequencing. This study accurately predicts this force by accounting for all experimental conditions, resolving previous discrepancies with measurements.

Area of Science:

  • Nanotechnology
  • Biophysics
  • Computational Science

Background:

  • Accurate prediction of electrophoretic force on DNA in solid-state nanopores is crucial for advancing nanopore sequencing technologies.
  • Discrepancies between theoretical predictions and experimental measurements of this force have hindered progress.

Purpose of the Study:

  • To accurately predict the electrophoretic force acting on DNA molecules within solid-state nanopores.
  • To resolve discrepancies between theoretical models and experimental observations of DNA behavior in nanopores.

Main Methods:

  • Compared numerical solutions of Poisson-Boltzmann and Poisson-Nernst-Planck models for electrolyte behavior.
  • Evaluated viscous drag force on DNA in silicon nitride nanopores using fine-mesh numerical simulations.

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Last Updated: May 18, 2026

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Published on: October 31, 2013

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  • Accounted for positional uncertainty of DNA within the nanopore.

    • Main Results:

    • The electrophoretic force on DNA in nanopores is predictable with high accuracy when all experimental conditions are considered.
    • Numerical simulations show good agreement with experimental results when DNA's positional uncertainty is factored in.
    • Poisson-Boltzmann and Poisson-Nernst-Planck models yield compatible results for electrolyte behavior.

    Conclusions:

    • Accurate modeling of DNA electrophoretic forces in nanopores requires careful consideration of all experimental parameters, including positional variations.
    • This work reconciles theoretical predictions with experimental data, paving the way for improved nanopore sequencing technologies.