SPICE circuit simulation of the electrical response of a semiconductor membrane to a single-stranded DNA translocating through a nanopore

Amandine Leroux; Jacques Destiné; Benoît Vanderheyden; Maria E. Gracheva; Jean Pierre Leburton

doi:10.1109/TNANO.2010.2043957

SPICE circuit simulation of the electrical response of a semiconductor membrane to a single-stranded DNA translocating through a nanopore

Amandine Leroux, Jacques Destiné, Benoît Vanderheyden, Maria E. Gracheva, Jean Pierre Leburton

Research output: Contribution to journal › Article › peer-review

Abstract

In this paper, we describe a circuit-element model for the electric detection of biomolecules in translocation through a nanopore in a semiconductor-oxide-semiconductor (SOS) membrane. The biomolecules are simulated as a superposition of individual charges moving through the nanopore and inducing a charge variation on the membrane electrodes that is modeled as a current source. The SOS membrane is discretized into interconnected elementary circuit elements. The model is tested on the translocation of 11 base single-stranded C3AC7 DNA molecule, for which the electric signal shows good qualitative agreement with the multiscale device approach of Gracheva et al., while quantifying the low-pass filtering in the membrane. Overall, the model confirms the possibility of identifying the sequence of the DNA bases electrically.

Original language	English (US)
Article number	5419115
Pages (from-to)	322-329
Number of pages	8
Journal	IEEE Transactions on Nanotechnology
Volume	9
Issue number	3
DOIs	https://doi.org/10.1109/TNANO.2010.2043957
State	Published - May 2010

Keywords

Circuit modeling
DNA sequencing
Solid-state nanopore
SPICE simulation

ASJC Scopus subject areas

Electrical and Electronic Engineering
Computer Science Applications

Online availability

10.1109/TNANO.2010.2043957

Library availability

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title = "SPICE circuit simulation of the electrical response of a semiconductor membrane to a single-stranded DNA translocating through a nanopore",

abstract = "In this paper, we describe a circuit-element model for the electric detection of biomolecules in translocation through a nanopore in a semiconductor-oxide-semiconductor (SOS) membrane. The biomolecules are simulated as a superposition of individual charges moving through the nanopore and inducing a charge variation on the membrane electrodes that is modeled as a current source. The SOS membrane is discretized into interconnected elementary circuit elements. The model is tested on the translocation of 11 base single-stranded C3AC7 DNA molecule, for which the electric signal shows good qualitative agreement with the multiscale device approach of Gracheva et al., while quantifying the low-pass filtering in the membrane. Overall, the model confirms the possibility of identifying the sequence of the DNA bases electrically.",

keywords = "Circuit modeling, DNA sequencing, Solid-state nanopore, SPICE simulation",

author = "Amandine Leroux and Jacques Destin{\'e} and Beno{\^i}t Vanderheyden and Gracheva, {Maria E.} and Leburton, {Jean Pierre}",

note = "Funding Information: Manuscript received April 29, 2009; revised November 4, 2009. Date of publication February 22, 2010; date of current version May 14, 2010. This work was supported by the National Institute of Health under Grant ROI-HG003713-01 and by the University of Li{\`e}ge. The review of this paper was arranged by Associate Editor C. Bartic.",

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doi = "10.1109/TNANO.2010.2043957",

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AU - Leroux, Amandine

AU - Destiné, Jacques

AU - Vanderheyden, Benoît

AU - Gracheva, Maria E.

AU - Leburton, Jean Pierre

N1 - Funding Information: Manuscript received April 29, 2009; revised November 4, 2009. Date of publication February 22, 2010; date of current version May 14, 2010. This work was supported by the National Institute of Health under Grant ROI-HG003713-01 and by the University of Liège. The review of this paper was arranged by Associate Editor C. Bartic.

PY - 2010/5

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N2 - In this paper, we describe a circuit-element model for the electric detection of biomolecules in translocation through a nanopore in a semiconductor-oxide-semiconductor (SOS) membrane. The biomolecules are simulated as a superposition of individual charges moving through the nanopore and inducing a charge variation on the membrane electrodes that is modeled as a current source. The SOS membrane is discretized into interconnected elementary circuit elements. The model is tested on the translocation of 11 base single-stranded C3AC7 DNA molecule, for which the electric signal shows good qualitative agreement with the multiscale device approach of Gracheva et al., while quantifying the low-pass filtering in the membrane. Overall, the model confirms the possibility of identifying the sequence of the DNA bases electrically.

AB - In this paper, we describe a circuit-element model for the electric detection of biomolecules in translocation through a nanopore in a semiconductor-oxide-semiconductor (SOS) membrane. The biomolecules are simulated as a superposition of individual charges moving through the nanopore and inducing a charge variation on the membrane electrodes that is modeled as a current source. The SOS membrane is discretized into interconnected elementary circuit elements. The model is tested on the translocation of 11 base single-stranded C3AC7 DNA molecule, for which the electric signal shows good qualitative agreement with the multiscale device approach of Gracheva et al., while quantifying the low-pass filtering in the membrane. Overall, the model confirms the possibility of identifying the sequence of the DNA bases electrically.

KW - Circuit modeling

KW - DNA sequencing

KW - Solid-state nanopore

KW - SPICE simulation

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SPICE circuit simulation of the electrical response of a semiconductor membrane to a single-stranded DNA translocating through a nanopore

Abstract

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