Literature DB >> 19804730

Effect of noise on DNA sequencing via transverse electronic transport.

Matt Krems1, Michael Zwolak, Yuriy V Pershin, Massimiliano Di Ventra.   

Abstract

Previous theoretical studies have shown that measuring the transverse current across DNA strands while they translocate through a nanopore or channel may provide a statistically distinguishable signature of the DNA bases, and may thus allow for rapid DNA sequencing. However, fluctuations of the environment, such as ionic and DNA motion, introduce important scattering processes that may affect the viability of this approach to sequencing. To understand this issue, we have analyzed a simple model that captures the role of this complex environment in electronic dephasing and its ability to remove charge carriers from current-carrying states. We find that these effects do not strongly influence the current distributions due to the off-resonant nature of tunneling through the nucleotides--a result we expect to be a common feature of transport in molecular junctions. In particular, only large scattering strengths, as compared to the energetic gap between the molecular states and the Fermi level, significantly alter the form of the current distributions. Since this gap itself is quite large, the current distributions remain protected from this type of noise, further supporting the possibility of using transverse electronic transport measurements for DNA sequencing.

Mesh:

Substances:

Year:  2009        PMID: 19804730      PMCID: PMC2756358          DOI: 10.1016/j.bpj.2009.06.055

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  28 in total

1.  Rapid nanopore discrimination between single polynucleotide molecules.

Authors:  A Meller; L Nivon; E Brandin; J Golovchenko; D Branton
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-01       Impact factor: 11.205

2.  Sizing DNA using a nanometer-diameter pore.

Authors:  Jiunn B Heng; Chuen Ho; Taekyung Kim; Rolf Timp; Aleksij Aksimentiev; Yelena V Grinkova; Stephen Sligar; Klaus Schulten; Gregory Timp
Journal:  Biophys J       Date:  2004-08-23       Impact factor: 4.033

3.  Determination of RNA orientation during translocation through a biological nanopore.

Authors:  Tom Z Butler; Jens H Gundlach; Mark A Troll
Journal:  Biophys J       Date:  2005-10-07       Impact factor: 4.033

4.  Detecting single stranded DNA with a solid state nanopore.

Authors:  Daniel Fologea; Marc Gershow; Bradley Ledden; David S McNabb; Jene A Golovchenko; Jiali Li
Journal:  Nano Lett       Date:  2005-10       Impact factor: 11.189

5.  Orientation discrimination of single-stranded DNA inside the alpha-hemolysin membrane channel.

Authors:  Jérôme Mathé; Aleksei Aksimentiev; David R Nelson; Klaus Schulten; Amit Meller
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-19       Impact factor: 11.205

6.  Comment on "Characterization of the tunneling conductance across DNA bases".

Authors:  Johan Lagerqvist; Michael Zwolak; Massimiliano Di Ventra
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2007-07-09

7.  Nanogap detector inside nanofluidic channel for fast real-time label-free DNA analysis.

Authors:  Xiaogan Liang; Stephen Y Chou
Journal:  Nano Lett       Date:  2008-04-17       Impact factor: 11.189

8.  Characterization of individual polynucleotide molecules using a membrane channel.

Authors:  J J Kasianowicz; E Brandin; D Branton; D W Deamer
Journal:  Proc Natl Acad Sci U S A       Date:  1996-11-26       Impact factor: 11.205

Review 9.  The potential and challenges of nanopore sequencing.

Authors:  Daniel Branton; David W Deamer; Andre Marziali; Hagan Bayley; Steven A Benner; Thomas Butler; Massimiliano Di Ventra; Slaven Garaj; Andrew Hibbs; Xiaohua Huang; Stevan B Jovanovich; Predrag S Krstic; Stuart Lindsay; Xinsheng Sean Ling; Carlos H Mastrangelo; Amit Meller; John S Oliver; Yuriy V Pershin; J Michael Ramsey; Robert Riehn; Gautam V Soni; Vincent Tabard-Cossa; Meni Wanunu; Matthew Wiggin; Jeffery A Schloss
Journal:  Nat Biotechnol       Date:  2008-10       Impact factor: 54.908

10.  A nanofluidic channel with embedded transverse nanoelectrodes.

Authors:  T Maleki; S Mohammadi; B Ziaie
Journal:  Nanotechnology       Date:  2009-02-16       Impact factor: 3.874

View more
  19 in total

1.  DNA base-specific modulation of microampere transverse edge currents through a metallic graphene nanoribbon with a nanopore.

Authors:  Kamal K Saha; Marija Drndić; Branislav K Nikolić
Journal:  Nano Lett       Date:  2011-12-15       Impact factor: 11.189

Review 2.  Decoding DNA, RNA and peptides with quantum tunnelling.

Authors:  Massimiliano Di Ventra; Masateru Taniguchi
Journal:  Nat Nanotechnol       Date:  2016-02       Impact factor: 39.213

3.  Electrochemical tunnelling sensors and their potential applications.

Authors:  T Albrecht
Journal:  Nat Commun       Date:  2012-05-08       Impact factor: 14.919

4.  Maxwell-Hall access resistance in graphene nanopores.

Authors:  Subin Sahu; Michael Zwolak
Journal:  Phys Chem Chem Phys       Date:  2018-02-14       Impact factor: 3.676

5.  Classification of DNA nucleotides with transverse tunneling currents.

Authors:  Jonas Nyvold Pedersen; Paul Boynton; Massimiliano Di Ventra; Antti-Pekka Jauho; Henrik Flyvbjerg
Journal:  Nanotechnology       Date:  2016-11-29       Impact factor: 3.874

6.  Colloquium: Ionic phenomena in nanoscale pores through 2D materials.

Authors:  Subin Sahu; Michael Zwolak
Journal:  Rev Mod Phys       Date:  2019       Impact factor: 54.494

7.  Fabrication and characterization of nanopores with insulated transverse nanoelectrodes for DNA sensing in salt solution.

Authors:  Ken Healy; Vishva Ray; Lauren J Willis; Neil Peterman; John Bartel; Marija Drndić
Journal:  Electrophoresis       Date:  2012-12       Impact factor: 3.535

8.  Communication: Relaxation-limited electronic currents in extended reservoir simulations.

Authors:  Daniel Gruss; Alex Smolyanitsky; Michael Zwolak
Journal:  J Chem Phys       Date:  2017-10-14       Impact factor: 3.488

9.  Ionic memcapacitive effects in nanopores.

Authors:  Matt Krems; Yuriy V Pershin; Massimiliano Di Ventra
Journal:  Nano Lett       Date:  2010-07-14       Impact factor: 11.189

10.  Controlled translocation of individual DNA molecules through protein nanopores with engineered molecular brakes.

Authors:  Marcela Rincon-Restrepo; Ellina Mikhailova; Hagan Bayley; Giovanni Maglia
Journal:  Nano Lett       Date:  2011-01-11       Impact factor: 11.189

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.