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Updated: Jun 22, 2026

Analysis of Multidimensional Microscopy Data Using Cell-ACDC
Published on: November 7, 2025
Chapter 16. Two-photon microscopy and multidimensional analysis of cell dynamics
Bernd H Zinselmeyer1, John Dempster, David L Wokosin
1Washington University School of Medicine, Department of Pathology and Immunology, St. Louis, Missouri, USA.
Insights
Two-photon (2P) microscopy offers high-resolution imaging for studying cell dynamics in tissues. This guide details 2P microscope design, tissue preparation, and data analysis for researchers.
Area of Science:
- * Biomedical imaging
- * Cell biology
- * Immunology
Background:
- * Two-photon (2P) microscopy is a high-resolution imaging technique.
- * Initially used in neurobiology and developmental cell biology, it is now widely adopted in immunology.
- * 2P microscopy provides exceptional views of single-cell spatiotemporal dynamics within intact tissues and organs.
Purpose of the Study:
- * To discuss the technical aspects of 2P microscope design.
- * To explain various tissue imaging preparations for 2P microscopy.
- * To guide readers through the analysis and presentation of multidimensional data sets.
Main Methods:
- * Review of 2P microscope design principles.
- * Detailed explanation of tissue preparation techniques for imaging.
- * Guidance on multidimensional data analysis and result presentation.
Main Results:
- * 2P microscopy enables unparalleled visualization of cellular dynamics in vivo.
- * Advancements in technology and reagents enhance its utility.
- * Comprehensive understanding of technical, preparative, and analytical aspects is crucial for effective application.
Conclusions:
- * Two-photon microscopy is an increasingly valuable tool for cell function assessment and molecular mechanism studies.
- * The technology's development, coupled with new reagents, expands its research potential.
- * This review serves as a comprehensive resource for researchers utilizing 2P microscopy.
Abstract:
Two-photon (2P) microscopy is a high-resolution imaging technique that was initially applied by neurobiologists and developmental cell biologists but has subsequently been broadly adapted by immunologists. The value of 2P microscopy is that it affords an unparalleled view of single-cell spatiotemporal dynamics deep within intact tissues and organs. As the technology develops and new transgenic mice and fluorescent probes become available, 2P microscopy will serve as an increasingly valuable tool for assessing cell function and probing molecular mechanisms. Here we discuss the technical aspects related to 2P microscope design, explain in detail various tissue imaging preparations, and walk the reader through the often daunting process of analyzing multidimensional data sets and presenting the experimental results.
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