Highly multiplexed immunofluorescence imaging of human tissues and tumors using t-CyCIF and conventional optical microscopes
By Jia-Ren Lin, Benjamin Izar, Shu Wang, C. Yapp, Shaolin Mei, Parin Shah, S. Santagata, Peter K. Sorger. eLife, 2018
595 citations recorded by the source corpus.
The architecture of normal and diseased tissues strongly influences the development and progression of disease as well as responsiveness and resistance to therapy. We describe a tissue-based cyclic immunofluorescence (t-CyCIF) method for highly multiplexed immuno-fluorescence imaging of formalin-fixed, paraffin-embedded (FFPE) specimens mounted on glass slides, the most widely used specimens for histopathological diagnosis of cancer and other diseases. t-CyCIF generates up to 60-plex images using an iterative process (a cycle) in which conventional low-plex fluorescence images are repeatedly collected from the same sample and then assembled into a high-dimensional representation. t-CyCIF requires no specialized instruments or reagents and is compatible with super-resolution imaging; we demonstrate its application to quantifying signal transduction cascades, tumor antigens and immune markers in diverse tissues and tumors. The simplicity and adaptability of t-CyCIF makes it an effective method for pre-clinical and clinical research and a natural complement to single-cell genomics.
Subfields: Biophysics, Immunology, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/101342c41c4012adb657b38fa40a446aa51ac3a6
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In Biophysics
In Immunology
In Molecular Biology
- Steven P. Gygi
- Peter K. Sorger
- Ralph S. Baric
- Joshua D. Rabinowitz
- M. Haigis
- Alexey I. Nesvizhskii
- Matthias Mann
- R. Aebersold
Citations in the corpus
- Coordinated Cellular Neighborhoods Orchestrate Antitumoral Immunity at the Colorectal Cancer Invasive Front (2019, unknown): “, 2013), tCyCIF (Lin et al., 2018) and 4i (Gut et al.”
- The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution (2020, unknown): “Recent advances in single-cell and multiplexed spatial analysis of tissue allow us to interrogate this complexity at unprecedented resolution (Angelo et al., 2014; Buenrostro et al., 2015; Chen et al., 2016a; Chen et al., 2016b; Du et al., 2019; Gaublomme et al., 2019; Gierahn et al., 2017; Giesen e”
- SARS-CoV-2 infection protects against rechallenge in rhesus macaques (2020, methodology): “To further characterize infected tissues, we performed cyclic immunofluorescence (CyCIF) imaging, a method for multiplex immunophenotyping of paraformaldehyde fixed tissue specimens (16).”
- A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade (2018, unknown): “Multiplexed, tissue cyclic immunofluorescence (t-CyCIF) was performed as described recently (Lin et al., 2018).”
- Obesity shapes metabolism in the tumor microenvironment to suppress anti-tumor immunity (2020, background): “The resulting 23-plex, sub-cellular resolution images of formalin fixed paraffin embedded (FFPE) tissue sections made it possible to generate an atlas of immune, tumor, and stromal cell populations, map their locations within the TME, and identify key features of their metabolic state (Lin et al., 2”
- Giotto: a toolbox for integrative analysis and visualization of spatial expression data (2021, methodology): “As an illustrating example, we analyzed a public dataset obtained by CyCIF [10].”