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- Title
Optical detection of DNA translocation through silicon nanopore by ultraviolet light.
- Authors
Yamazaki, Hirohito; Kimura, Shinji; Tsukahara, Mutsumi; Esashika, Keiko; Saiki, Toshiharu
- Abstract
In this paper, we propose a new optical detection scheme for nanopore-based DNA sequencing with high resolution towards eventual base identification. We use ultraviolet light for excitation of a fluorescent probe attached to DNA and a nanopore in the silicon membrane that has a significantly large refractive index and an extinction coefficient at ultraviolet wavelengths. In this study, numerical electromagnetic simulation revealed that the z-polarization component (perpendicular to the membrane plane) of the electric field was dominant near the nanopore and generated a large electric field gradient at the nanopore exit, typically with a decay length of 2 nm for a nanopore with diameter of 7 nm. The large extinction coefficient contributed to reduction in background noise coming from fluorophore-labeled DNA strands that remain behind the membrane (the cis side of the membrane). We observed a high signal-to-noise ratio of single DNA translocation events under the application of an electric field.
- Subjects
CHROMOSOMAL translocation; NANOPORES; NANOSILICON; ULTRAVIOLET radiation; NUCLEOTIDE sequence
- Publication
Applied Physics A: Materials Science & Processing, 2014, Vol 115, Issue 1, p53
- ISSN
0947-8396
- Publication type
Article
- DOI
10.1007/s00339-013-7956-0