All-optical DNA variant discovery utilizing extended DV-curve-based wavelength modulation

Maleki, E ; Sharif University of Technology | 2018

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  1. Type of Document: Article
  2. DOI: 10.1364/JOSAA.35.001929
  3. Publisher: OSA - The Optical Society , 2018
  4. Abstract:
  5. This paper presents a novel optical processing approach for exploring genome sequences built upon an optical correlator for global alignment and the extended dual-vector-curve-curve (DV-curve) method for local alignment. To overcome the problem of the traditional DV-curve method for presenting an accurate and simplified output, we propose the hybrid amplitude wavelength polarization optical DV-curve (HAWPOD) method, built upon the DV-curve method, to analyze genome sequences in three steps: DNA coding, alignment, and post-Analysis. For this purpose, a tunable graphene-based color filter is designed for wavelength modulation of optical signals. Moreover, all-optical implementation of the HAWPOD method is developed, while its accuracy is validated through numerical simulations in LUMERICAL FDTD. The results express that the proposed method is much faster than its electrical counterparts. © 2018 Optical Society of America
  6. Keywords:
  7. Alignment ; Curve fitting ; DNA sequences ; Genes ; Genetic engineering ; Graphene ; Modulation ; Numerical methods ; Genome sequences ; Global alignment ; Local alignment ; Optical correlators ; Optical processing ; Optical signals ; Post analysis ; Wavelength modulation ; Optical signal processing
  8. Source: Journal of the Optical Society of America A: Optics and Image Science, and Vision ; Volume 35, Issue 11 , 2018 , Pages 1929-1940 ; 10847529 (ISSN)
  9. URL: https://www.osapublishing.org/josaa/abstract.cfm?uri=josaa-35-11-1929