Improving zero-mode waveguide structure for enhancing signal-to-noise ratio of real-time single-molecule fluorescence imaging: A computational study

Takashi Tanii, Rena Akahori, Shun Higano, Kotaro Okubo, Hideaki Yamamoto, Taro Ueno, Takashi Funatsu

Research output: Contribution to journalArticle

7 Citations (Scopus)


We investigated the signal-to-noise ratio (S/N) of real-time single-molecule fluorescence imaging (SMFI) using zero-mode waveguides (ZMWs). The excitation light and the fluorescence propagating from a molecule in the ZMW were analyzed by computational optics simulation. The dependence of the S/N on the ZMW structure was investigated with the diameter and etching depth as the simulation parameters. We found that the SMFI using a conventional ZMW was near the critical level for detecting binding and dissociation events. We show that etching the glass surface of the ZMW by 60 nm enhances the S/N six times the conventional nonetched ZMWs. The enhanced S/N improves the temporal resolution of the SMFI at physiological concentrations.

Original languageEnglish
Article number012727
JournalPhysical Review E - Statistical, Nonlinear, and Soft Matter Physics
Issue number1
Publication statusPublished - 2013 Jul 30


ASJC Scopus subject areas

  • Statistical and Nonlinear Physics
  • Statistics and Probability
  • Condensed Matter Physics

Cite this