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Automation of the Micronucleus Assay Using Imaging Flow Cytometry and Artificial Intelligence
Published on: January 27, 2023
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Using artificial intelligence to improve cell therapy assays: automated quantitative image analysis of cells on
Alexander M Bornschlegl1, Allan B Dietz1
1Department of Lab Medicine and Pathology, Division of Experimental Pathology, Mayo Clinic, 200 1st Street SW, Rochester, MN 55905, USA.
Tissue & Cell
|July 29, 2025
Summary
An AI-powered imaging method accurately counts live and dead cells in scaffold cultures for cell therapy. This automated approach improves data accuracy over traditional software, aiding process optimization and release testing.
Area of Science:
- Cell Therapy
- Biotechnology
- Image Analysis
Background:
- Cell therapy advancements utilize directed delivery methods like 3D scaffolds.
- Accurate cell counting and viability assessment are crucial for process optimization.
- Current manual methods for cell quantification are labor-intensive and have limited dynamic range.
Purpose of the Study:
- To develop and validate a simple, automated, and quantitative fluorescent imaging-based method for counting live and dead cells in scaffold cultures.
- To compare the performance of traditional image quantitation software with a trained artificial intelligence (AI) software for cell counting and viability analysis.
- To assess the suitability of AI-based approaches for enhancing cell therapy development.
Main Methods:
- Optimized labware for uniform imaging fields in scaffold cultures.
- Compared traditional image quantitation software (Gen5) with trained AI software (Aiforia) for cell counting and viability.
- Utilized fluorescent imaging with Propidium Iodide for dead cell detection.
Main Results:
- AI software (Aiforia) showed high correlation between live cell counts and seeding concentration (r²=0.96).
- Traditional software (Gen5) showed no correlation for live cell counts (r²=0.09).
- Both methods showed correlation for dead cell counts (r²=0.90), indicating comparable detection.
Conclusions:
- Trained AI software significantly improves data accuracy for cell counting in complex scaffold backgrounds.
- AI-based image analysis offers a more consistent and quantitative solution for cell therapy applications.
- This automated method supports process optimization and release testing in cell therapy development.

