Related Experiment Video
Updated: Jun 8, 2026

Quantifying Microglia Morphology from Photomicrographs of Immunohistochemistry Prepared Tissue Using ImageJ
Published on: June 5, 2018
MorphoCellSorter is an Andrews plot-based sorting approach to rank microglia according to their morphological
Sarah Benkeder1,2, Son-Michel Dinh2,3, Paul Marchal1,2
1Claude Bernard Lyon 1 University, Lyon, France.
MorphoCellSorter is a new open-source tool that analyzes microglial cell morphology. It provides a versatile method to evaluate microglial diversity across various conditions and models.
Area of Science:
- Neuroscience
- Immunology
- Cell Biology
Background:
- Microglia, the immune cells of the central nervous system, display diverse morphologies linked to their functional states.
- Current morphological analysis methods often rely on distinct classifications that may not reflect the continuous nature of microglial morphology.
- A standardized and biologically relevant method for assessing microglial morphology is needed.
Purpose of the Study:
- To introduce MorphoCellSorter, an open-source tool for automated microglial morphology assessment.
- To provide a more biologically relevant and quantitative approach to analyzing microglial morphological diversity.
- To enable better discrimination of microglial populations in different physiological and pathological contexts.
Main Methods:
- Development of MorphoCellSorter, an open-source software tool.
- Utilizing principal component analysis and Andrews plots for automated cell scoring based on morphological criteria.
- Application of the tool to diverse microglial datasets from mice and rats (in vivo, in vitro, ex vivo) using various imaging techniques.
Main Results:
- MorphoCellSorter successfully ranked microglial cells across different datasets, ages, and experimental models.
- The tool demonstrated the ability to discriminate between cell populations under various pathophysiological conditions.
- Validated the tool's performance across multiple species and imaging modalities.
Conclusions:
- MorphoCellSorter offers a versatile, user-friendly, and ready-to-use method for evaluating microglial morphological diversity.
- This approach can standardize microglial morphological analysis across laboratories.
- Facilitates a deeper understanding of microglial roles in health and disease through quantitative morphological assessment.
More Related Videos
09:49Isolation of Region-specific Microglia from One Adult Mouse Brain Hemisphere for Deep Single-cell RNA Sequencing
Published on: December 3, 2019
10:40Immunofluorescence Staining Using IBA1 and TMEM119 for Microglial Density, Morphology and Peripheral Myeloid Cell Infiltration Analysis in Mouse Brain
Published on: October 27, 2019