title: Identification of fluorescent beads using a coded aperture snapshot spectral imager.
abstract: 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.
authors.affiliation: Fitzpatrick Institute for Photonics and Department of Electrical and Computer Engineering, Duke University, 129 Hudson Hall, Durham, North Carolina 27708, USA.
authors.forename: Christy Fernandez
authors.initials: CF
authors.lastname: Cull
authors.forename: Kerkil
authors.initials: K
authors.lastname: Choi
authors.forename: David J
authors.initials: DJ
authors.lastname: Brady
authors.forename: Tim
authors.initials: T
authors.lastname: Oliver
mesh_terms: D000465:Algorithms; D005456:Fluorescent Dyes; D021621:Imaging, Three-Dimensional / Q000706:statistics & numerical data; D008863:Microspheres; D055096:Optical Devices; D055620:Optical Phenomena; D013050:Spectrometry, Fluorescence / Q000295:instrumentation / Q000379:methods* / Q000706:statistics & numerical data
chemical_list: D005456:Fluorescent Dyes