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Applied Optics

Applied Optics


  • Editor: Joseph N. Mait
  • Vol. 49, Iss. 10 — Apr. 1, 2010
  • pp: B59–B70

Identification of fluorescent beads using a coded aperture snapshot spectral imager

Christy Fernandez Cull, Kerkil Choi, David J. Brady, and Tim Oliver  »View Author Affiliations

Applied Optics, Vol. 49, Issue 10, pp. B59-B70 (2010)

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We apply a coded aperture snapshot spectral imager (CASSI) to fluorescence microscopy. CASSI records a two-dimensional (2D) spectrally filtered projection of a three-dimensional (3D) spectral data cube. We minimize a convex quadratic function with total variation (TV) constraints for data cube estimation from the 2D snapshot. We adapt the TV minimization algorithm for direct fluorescent bead identification from CASSI measurements by combining a priori knowledge of the spectra associated with each bead type. Our proposed method creates a 2D bead identity image. Simulated fluorescence CASSI measurements are used to evaluate the behavior of the algorithm. We also record real CASSI measurements of a ten bead type fluorescence scene and create a 2D bead identity map. A baseline image from filtered-array imaging system verifies CASSI’s 2D bead identity map.

© 2010 Optical Society of America

OCIS Codes
(100.3010) Image processing : Image reconstruction techniques
(100.3190) Image processing : Inverse problems
(110.0180) Imaging systems : Microscopy
(180.2520) Microscopy : Fluorescence microscopy
(110.1758) Imaging systems : Computational imaging
(110.4234) Imaging systems : Multispectral and hyperspectral imaging

Original Manuscript: October 1, 2009
Revised Manuscript: January 12, 2010
Manuscript Accepted: January 29, 2010
Published: March 2, 2010

Virtual Issues
Vol. 5, Iss. 8 Virtual Journal for Biomedical Optics

Christy Fernandez Cull, Kerkil Choi, David J. Brady, and Tim Oliver, "Identification of fluorescent beads using a coded aperture snapshot spectral imager," Appl. Opt. 49, B59-B70 (2010)

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