Hauptseminar Multiscale Simulations SS 2016/Ion transport through nanopores via atomistic simulations

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Datum
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Thema
Ion transport through nanopores via atomistic simulations
Vortragender
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Betreuer
Florian Weik

Contents

  • Overview over nanopores and sensing applications.
  • DNA pore blockage experiments by Smeets. et. al. and relation to DNA sequencing
  • Infinite cylinder model and introduction of Poisson-Boltzmann (PB) theory and Stokes flow
  • Atomitic description of the system
    • Force fields
    • Model
    • Results and comparison to PB theory.

Literature

    • C. Dekker.
      "Solid-state nanopores".
      Nature Nanotech 2(209–215), 2007.
      [PDF] (871 KB)
    • Howorka, Stefan and Siwy, Zuzanna.
      "Nanopore analytics: sensing of single molecules".
      Chemical Society Reviews 38(8)(2360–2384), 2009.
      [DOI]
    • Venkatesan, B.M. and Bashir, R..
      "Nanopore sensors for nucleic acid analysis".
      Nature Nanotechnology 6(10)(615–624), 2011.
    • Miles, BN and Ivanov, AP and Wilson, KA and Dogan, F and Japrung, D and Edel, JB.
      "Single molecule sensing with solid-state nanopores: novel materials, methods, and applications".
      Chemical Society Reviews 42(15–28), 2013.
      [DOI]
    • Kesselheim, Stefan and Müller, Wojciech and Holm, Christian.
      "Origin of Current Blockades in Nanopore Translocation Experiments".
      Physical Review Letters 112(018101), 2014.
      [PDF] (351 KB) [DOI] [URL]
    • Stefan Kesselheim.
      "Simulations of DNA Translocation through nanopores".
      PhD thesis, Universitaet Stuttgart, 2014.
    • Ralph M. M. Smeets and Ulrich F. Keyser and Diego Krapf and Meng-Yue Wu and Nynke H. Dekker and Cees Dekker.
      "Salt dependence of ion transport and DNA translocation through solid-state nanopores".
      Nano Letters 6(89–95), 2006.
      [PDF] (993 KB)
    • Markus Deserno and Christian Holm and Jürgen Blaul and Matthias Ballauff and Matthias Rehahn.
      "The Osmotic Coefficient of Rod-like Polyelectrolytes: Computer Simulation, Analytical Theory, and Experiment".
      European Physical Journal E: Soft Matter 5(97–103), 2001.
      [PDF] (147 KB) [DOI]
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