Resources / A comprehensive workflow for highplex imaging, tissue segmentation, and multiplex cellular phenotyping for tumor microenvironment analysis
Phenoplex™
A comprehensive workflow for highplex imaging, tissue segmentation, and multiplex cellular phenotyping for tumor microenvironment analysis
Originally presented at AACR 2023
Background

The growth in cancer immunotherapy agents requires an understanding of the immune contexture of the tumor microenvironment (TME). One way to understand immune contexture is to use multiplex staining, imaging, and analysis to obtain multi-marker phenotypes of specific cells and analyze their biodistribution in the TME. Imaging Mass Cytometry™ (IMC) is the method of choice for single-step staining and highplex imaging of FFPE tissues. FFPE tissue is autofluorescent, which limits the utility of immunofluorescence methods, particularly when done without amplification. Lung and colorectal tissue (and bone, skin, etc) are highly autofluorescence, and therefore are a good target for IMC imaging, which has no autofluorescence issues. However, developments in analysis software with a single-package workflow for highplex imagery have not kept pace. We present here a comprehensive workflow in the Oncotopix® Discovery platform designed specifically for highplex IMC image analysis, covering tissue segmentation, cell segmentation based on IMC DNA images, cellular phenotyping, and spatial analyses.

Authors and institutions

Fabian Schneider1, Brenna O’Neill1, Rasmus A. Lyngby1, Rasmus N. Sørensen1, Andreas Hussing1, Alessandro S. Massaro1, Andrew Quong2, Smriti Kala2, Sam Lim2, Clinton Hupple2, Nina Lane2, Michelle Macpherson2, Jeppe Thagaard1, Johan Doré Hansen1, James Mansfield1

  1. Visiopharm, Horsholm, Denmark
  2. Standard BioTools, South San Francisco, CA, USA

 

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