title: Video-rate processing in tomographic phase microscopy of biological cells using CUDA.
abstract: We suggest a new implementation for rapid reconstruction of three-dimensional (3-D) refractive index (RI) maps of biological cells acquired by tomographic phase microscopy (TPM). The TPM computational reconstruction process is extremely time consuming, making the analysis of large data sets unreasonably slow and the real-time 3-D visualization of the results impossible. Our implementation uses new phase extraction, phase unwrapping and Fourier slice algorithms, suitable for efficient CPU or GPU implementations. The experimental setup includes an external off-axis interferometric module connected to an inverted microscope illuminated coherently. We used single cell rotation by micro-manipulation to obtain interferometric projections from 73 viewing angles over a 180° angular range. Our parallel algorithms were implemented using Nvidia's CUDA C platform, running on Nvidia's Tesla K20c GPU. This implementation yields, for the first time to our knowledge, a 3-D reconstruction rate higher than video rate of 25 frames per second for 256 × 256-pixel interferograms with 73 different projection angles (64 × 64 × 64 output). This allows us to calculate additional cellular parameters, while still processing faster than video rate. This technique is expected to find uses for real-time 3-D cell visualization and processing, while yielding fast feedback for medical diagnosis and cell sorting.
authors.forename: Gili
authors.initials: G
authors.lastname: Dardikman
authors.forename: Mor
authors.initials: M
authors.lastname: Habaza
authors.forename: Laura
authors.initials: L
authors.lastname: Waller
authors.forename: Natan T
authors.initials: NT
authors.lastname: Shaked
mesh_terms: D000465:Algorithms; D002452:Cell Count; D007368:Interferometry; D008853:Microscopy / Q000379:methods*; D014054:Tomography / Q000379:methods*; D014741:Video Recording