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Method Article

Standardized Workflow for High-Content Imaging and Data Processing

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DOI:

10.3791/71863

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August 21st, 2026

In This Article

Summary

Here, we present a protocol for standardized high-content imaging and data processing of propidium iodide (PI)/Hoechst 33342-stained cells to perform reproducible cell viability analysis using automated image acquisition and analysis workflows.

Abstract

To address the challenges of low reproducibility due to operational variations in scientific research imaging and the complexity of analyzing a large number of samples using conventional methods, we introduce a protocol for staining HT22 cells with PI and Hoechst 33342 and then imaging and analyzing the data using the High-Content Imaging System. This workflow aims to establish robust imaging setting parameters and stringent quality control standards. It demonstrates the instrument's imaging settings and the workflow for three different image processing methods provided by the instrument: Multi-Wavelength Cell Scoring (Multi), Live-Dead (Live), and Custom Module Editor (CME). The image processing methods are compared and validated against the traditional method, ImageJ, to ensure their effectiveness. The study ultimately summarizes a workflow for using the High-Content Imaging System to determine cell viability using the PI and Hoechst double-staining method. By standardizing the entire imaging and data processing workflow, the study significantly enhances the reproducibility and reliability of scientific research imaging, thereby providing solid methodological support for cross-laboratory data comparison and advancing scientific research.

Introduction

High-Content Imaging System serves as a crucial tool in modern scientific research, enabling high-speed imaging and multi-parameter assessment of injured or uninjured cells1,2,3. It plays an irreplaceable role in various disciplines. In the field of life sciences, it assists researchers in exploring the microscopic world of cells and tissues4,5. For instance, the precise detection of fluorescently labeled molecules and structures within cells allows clear visualization of cellular fine structures and dynamic changes

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Protocol

This protocol uses a commercial cell line (HT22, ATCC) and does not involve human subjects or primary human tissues. No animals were used in this study.

1. Standardized sample preparation

  1. Prepare HT22 cells
    1. When the confluence of HT22 cells reaches 80%10,11, discard the old medium. Use 0.25% trypsin to dislodge the cells, incubating for 1–2 min at room temperature.
    2. Add Dulbecco’s Modified Eagle Medium (DMEM) at 3x the volume of 0.25% trypsin to stop the dislodgment. Transfer the cell suspension to a 15 mL centrifuge tub....

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Results

Impact of standardized preparation on imaging quality

The plate parameters were configured to ensure that the instrument could reliably locate the cell image layer. Samples prepared as a single layer of cells with moderate confluence facilitated image focusing at different objective magnifications and improved image recognition and quantitative analysis. Standardized sample preparation and optimized plate parameters effectively minimized edge effects, cell overlap, and other f.......

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Discussion

Using the PI and Hoechst double staining method to determine cell viability, for example, the high-content instrument can quickly and in a high-throughput manner calculate cell viability within the same batch using built-in algorithm modules. This method has several advantages, including low sample volume, low cost, minimal cell damage, weak fluorescence bleaching, resistance to quenching, and the ability to capture multiple images. Additionally, the imaging time for a 96-well plate is generally only 30–45 min

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Disclosures

All authors declare that there is no conflict of interest. During the translation of the manuscript, Zhipu AI was used solely for translation and not for generating research data, experimental results, or core academic content. The authors assume full responsibility for the content of the manuscript.

Acknowledgements

The authors thank the support provided by the Chengdu University of Traditional Chinese Medicine School Foundation. The authors thank the support from the MPRC2022034 grant. This funding is used to develop a 3D dynamic imaging method for intestinal bacteria in Erchen Decoction to treat simple obese mice. The authors acknowledge the research platform provided by the Chengdu University of Traditional Chinese Medicine Innovative Institute of Chinese Medicine and Pharmacy and the Institute of Interdisciplinary Studies.

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Materials

List of materials used in this article
NameCompanyCatalog NumberComments
1.5 mL Centrifuge TubeLabigic Technology Co., Ltd.MCT-001-150
1000 µL Pipette TipsLabigic Technology Co., Ltd.35423003E
15 mL Centrifuge TubeLabigic Technology Co., Ltd.CT-002-15A
2.5 µL Pipette TipsQingdao Haier Biomedical Co., Ltd.B10T
200 µL Pipette TipsLabigic Technology Co., Ltd.T-001-200
50 mL Centrifuge TubeLabigic Technology Co., Ltd.CT-002-50A
96 Well Cell Culture PlateCorning Incorporated3599
Adjustable Single-Channel Pipette, 0.1–2.5 μLEppendorf SE3120000216
Adjustable Single-Channel Pipette, 100–1000 μLEppendorf SE3120000267
Adjustable Single-Channel Pipette, 20–200 μLEppendorf SE3120000259
Adjustable Single-Channel Pipette, 2–20 μLEppendorf SE3120000232
Cell Culture DishCorning Incorporated430167
Cryogenic VialsLabigic Technology Co., Ltd.BS-20-ST
Dimethyl sulfoxide (DMSO)Beijing Solarbio Science & Technology Co., Ltd.D8371
Dulbecco's Modified Eagle Medium (DMEM)Life Technologies Limited11966-025In this study, the complete DMEM was prepared using 10% FBS, 1% Penicillin-Streptomycin Solution, and 89% DMEM.
ESCO CelCulture CO2 IncubatorEsco Micro Pte. Ltd.CCL-170B-8
Fetal Bovine Serum (FBS,Superfine)Procell Life Science & Technology Co.,Ltd.164210-50
Hoechst 33342 Fluorescent DyesBeijing Solarbio Science & Technology Co., Ltd.B8040
HT22 cellProcell Life Science & Technology Co.,Ltd.CL-0697
ImageJNational Institutes of HealthImageJ is one of the image processing software used in the manuscript.
ImageXpress Micro Confocal High-Content Imaging SystemMolecular Devices, LLCImageXpress Micro ConfocalIn the manuscript, use "High-Content Imaging System" as a substitute for the instrument name.
Low speed freezing centrifugeHunan Xiangyi Laboratory Instrument Development Co., Ltd.L530R
MetaXpress High-Content Image Acquisition and Analysis SoftwareMolecular Devices, LLCThe software is a companion to the ImageXpress® Micro Confocal High-Content Imaging System. In the manuscript, "The analysis software provided with the device" refers to this software.
OptiMair Vertical Laminar Flow CabinetEsco Micro Pte. Ltd.ACB-4E1
Parafilm MPechiney Plastic Packaging Inc.PM996
PBS Shanghai Yuchun biology science and technology co., ltd YC-5013
Penicillin-Streptomycin SolutionProcell Life Science & Technology Co.,Ltd.PB180120
Propidium Iodide Solution (PI)Beijing Solarbio Science & Technology Co., Ltd.C0080
Trypsin-EDTA SolutionBasalMedia Technology Co.,Ltd.S310KJ

References

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  2. Menduti G, Boido M. Recent advances in high-content imaging and analysis in iPSC-based modelling of neurodegenerative diseases. Int J Mol Sci. 2023;24(19).
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  4. Geyer M, Schreyer D, Gaul LM, Pfeffer S, Pilarsky C, Queiroz K. A microfluidic-based PDAC organoid system reveals the impact of hypoxia in response to treatment. Cell Death Discovery. 2023;9:2....

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Tags

Imaging WorkflowCell ViabilityPI Hoechst StainingHT22 CellsImage Processing MethodsMulti-Wavelength Cell ScoringLive-Dead AssayImageJ Comparison

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