Functionalized nanopores have been used recently for the detection of specific DNA. The interactions between the DNA and the nanopore are not well understood due to the small size of DNA/nanopore and dynamic translocation process. Various chemical modifications have also been applied on nanopore surfaces for improved signal yield and selective detection. This paper develops an understanding of the interactions between translocating DNA and chemically modified nanopore surfaces. An energy-based mesoscale computational model is used to elucidate critical interrelationships between physical properties of the nanopore, electric field strength, and translocation kinetics. We report a nonlinear increase in DNA translocation speed with increasing electric field strength. The model predicts a transition in translocation from hybridization-driven to electric field-driven, in agreement with experimental data. This work advances the molecule-level understanding of the DNA-nanopore interface, and can help in designing optimized lab-on-chip devices for molecule based diagnosis.
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30 November 2009
Research Article|
November 30 2009
A mesoscale model of DNA interaction with functionalized nanopore
Yaling Liu;
Yaling Liu
a)
1Department of Mechanical and Aerospace Engineering,
The University of Texas at Arlington
, Arlington, Texas 76019, USA
2Joint Graduate Committee of Biomedical Engineering Program,
University of Texas at Arlington and University of Texas Southwestern Medical Center at Dallas
, Arlington, Texas 76019, USA
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Samir M. Iqbal
Samir M. Iqbal
2Joint Graduate Committee of Biomedical Engineering Program,
University of Texas at Arlington and University of Texas Southwestern Medical Center at Dallas
, Arlington, Texas 76019, USA
3Department of Electrical Engineering,
University of Texas at Arlington
, Arlington, Texas 76019, USA
4Nanotechnology Research and Teaching Facility,
University of Texas at Arlington
, Arlington, Texas 76019, USA
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a)
Author to whom correspondence should be addressed. Electronic mail: yaling.liu@uta.edu. Tel.: +1-817-272-1256. FAX: +1-817-272-5010.
Appl. Phys. Lett. 95, 223701 (2009)
Article history
Received:
March 15 2009
Accepted:
August 28 2009
Citation
Yaling Liu, Samir M. Iqbal; A mesoscale model of DNA interaction with functionalized nanopore. Appl. Phys. Lett. 30 November 2009; 95 (22): 223701. https://doi.org/10.1063/1.3240400
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