Live cell painting: New nontoxic dye to probe cell physiology in high content screening

Cottet, Martin; Marrero, Yuniel Fernandez; Mathien, Simon; Audette, Karine; Lambert, Raphaelle; Bonneil, Eric; Chng, Kenneth; Campos, Alex; Andrews, David W.

doi:10.1016/j.slasd.2023.10.005

Cited by 2 publications

(2 citation statements)

References 27 publications

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“…125,126 We see great promise in extending the Cell Painting assay (originally developed with 2D cell cultures) for use with more physiologically relevant systems such as 3D cell cultures, organoids 127 , tissue slices, and live cell imaging. 128 Finally, improvements in deep learning methods have dramatically altered the landscape in many fields of scientific research and we expect the same for Cell Painting data. Already, promising improvements have been made but there remains much room for improvement, particularly in batch correction methods that can extract biologically meaningful signals from technical noise.…”

Section: Challenges and Future Directionsmentioning

confidence: 92%

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A Decade in a Systematic Review: The Evolution and Impact of Cell Painting

Seal,

Trapotsi,

Spjuth

et al. 2024

Preprint

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High-content image-based assays have fueled significant discoveries in the life sciences in the past decade (2013-2023), including novel insights into disease etiology, mechanism of action, new therapeutics, and toxicology predictions. Here, we systematically review the substantial methodological advancements and applications of Cell Painting. Advancements include improvements in the Cell Painting protocol, assay adaptations for different types of perturbations and applications, and improved methodologies for feature extraction, quality control, and batch effect correction. Moreover, machine learning methods recently surpassed classical approaches in their ability to extract biologically useful information from Cell Painting images. Cell Painting data have been used alone or in combination with other - omics data to decipher the mechanism of action of a compound, its toxicity profile, and many other biological effects. Overall, key methodological advances have expanded Cell Painting’s ability to capture cellular responses to various perturbations. Future advances will likely lie in advancing computational and experimental techniques, developing new publicly available datasets, and integrating them with other high-content data types.

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Section: Challenges and Future Directionsmentioning

confidence: 92%

“…We see great promise in extending the Cell Painting assay (originally developed with 2D cell cultures) for use with more physiologically relevant systems such as 3D cell cultures, organoids 127 , tissue slices, and live cell imaging. 128…”

Section: Challenges and Future Directionsmentioning

confidence: 99%