PUBLICATION

Pre-processing visualization of hyperspectral fluorescent data with Spectrally Encoded Enhanced Representations

Authors
Shi, W., Koo, D.E.S., Kitano, M., Chiang, H.J., Trinh, L.A., Turcatel, G., Steventon, B., Arnesano, C., Warburton, D., Fraser, S.E., Cutrale, F.
ID
ZDB-PUB-200513-1
Date
2020
Source
Nature communications   11: 726 (Journal)
Registered Authors
Fraser, Scott E.
Keywords
none
MeSH Terms
  • Algorithms
  • Animals
  • Animals, Genetically Modified
  • Color
  • Embryo, Nonmammalian
  • Green Fluorescent Proteins/genetics
  • Green Fluorescent Proteins/metabolism
  • Image Processing, Computer-Assisted/methods*
  • Image Processing, Computer-Assisted/standards
  • Mice, Inbred C57BL
  • Microscopy, Confocal/methods
  • Signal-To-Noise Ratio
  • Spectrometry, Fluorescence/methods*
  • Zebrafish/embryology
  • Zebrafish/genetics
PubMed
32024828 Full text @ Nat. Commun.
Abstract
Hyperspectral fluorescence imaging is gaining popularity for it enables multiplexing of spatio-temporal dynamics across scales for molecules, cells and tissues with multiple fluorescent labels. This is made possible by adding the dimension of wavelength to the dataset. The resulting datasets are high in information density and often require lengthy analyses to separate the overlapping fluorescent spectra. Understanding and visualizing these large multi-dimensional datasets during acquisition and pre-processing can be challenging. Here we present Spectrally Encoded Enhanced Representations (SEER), an approach for improved and computationally efficient simultaneous color visualization of multiple spectral components of hyperspectral fluorescence images. Exploiting the mathematical properties of the phasor method, we transform the wavelength space into information-rich color maps for RGB display visualization. We present multiple biological fluorescent samples and highlight SEER's enhancement of specific and subtle spectral differences, providing a fast, intuitive and mathematical way to interpret hyperspectral images during collection, pre-processing and analysis.
Genes / Markers
Figures
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Expression
Phenotype
Mutation and Transgenics
Human Disease / Model Data
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping
Errata and Notes