High-speed image reconstruction for super-resolution structured illumination microscopy using facile optimization and conversion of reconstruction code in the GPU environment

Kwangsung Oh, Piero R. Bianco

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Super-resolution, structured illumination microscopy (SIM) is an ideal modality for imaging live cells due to its relatively high speed and low photon-induced damage to the cells. SIM consists of two generic components: (i) sample illumination by a sinusoidal pattern and (ii) computational reconstruction of a super-resolution image. The rate-limiting step in observing a super-resolution image in SIM is the reconstruction speed of the algorithm required to form a single image from as many as nine raw images. These reconstruction algorithms impose a significant computing burden due to a complex workflow and a large number of calculations requiring 10-300 seconds per image nullifying real-time imaging. In this mini-review, we show how the approaches we developed to improve Hessian-SIM algorithm reconstruction speed can be used to improve other SIM image reconstruction algorithms. These approaches, which included code improvement, conversion to the GPU environment, and use of cost-effective high-performance computers produce up to 500-fold increases in image reconstruction speed.

Original languageEnglish (US)
Title of host publicationSPIE-CLP Conference on Advanced Photonics 2023
EditorsAnatoly V. Zayats, Xiao-Cong Yuan
PublisherSPIE
ISBN (Electronic)9781510667389
DOIs
StatePublished - 2023
EventSPIE-CLP Conference on Advanced Photonics 2023 - San Diego, United States
Duration: Aug 22 2023Aug 23 2023

Publication series

NameProceedings of SPIE - The International Society for Optical Engineering
Volume12746
ISSN (Print)0277-786X
ISSN (Electronic)1996-756X

Conference

ConferenceSPIE-CLP Conference on Advanced Photonics 2023
Country/TerritoryUnited States
CitySan Diego
Period8/22/238/23/23

Keywords

  • CPU
  • GPU
  • image reconstruction
  • structured illumination microscopy
  • super-resolution imaging

ASJC Scopus subject areas

  • Electronic, Optical and Magnetic Materials
  • Condensed Matter Physics
  • Computer Science Applications
  • Applied Mathematics
  • Electrical and Electronic Engineering

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