Optimizing the Cell Painting assay for image-based profiling

BA Cimini, SN Chandrasekaran, M Kost-Alimova… - Nature protocols, 2023 - nature.com
In image-based profiling, software extracts thousands of morphological features of cells from
multi-channel fluorescence microscopy images, yielding single-cell profiles that can be used …

Cell Painting: a decade of discovery and innovation in cellular imaging

S Seal, MA Trapotsi, O Spjuth, S Singh… - Nature …, 2024 - nature.com
Modern quantitative image analysis techniques have enabled high-throughput, high-content
imaging experiments. Image-based profiling leverages the rich information in images to …

Learning representations for image-based profiling of perturbations

N Moshkov, M Bornholdt, S Benoit, M Smith… - Nature …, 2024 - nature.com
Measuring the phenotypic effect of treatments on cells through imaging assays is an efficient
and powerful way of studying cell biology, and requires computational methods for …

Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations

SN Chandrasekaran, BA Cimini, A Goodale, L Miller… - Nature …, 2024 - nature.com
The identification of genetic and chemical perturbations with similar impacts on cell
morphology can elucidate compounds' mechanisms of action or novel regulators of genetic …

High-dimensional gene expression and morphology profiles of cells across 28,000 genetic and chemical perturbations

M Haghighi, JC Caicedo, BA Cimini, AE Carpenter… - Nature …, 2022 - nature.com
Cells can be perturbed by various chemical and genetic treatments and the impact on gene
expression and morphology can be measured via transcriptomic profiling and image-based …

Application of cell painting for chemical hazard evaluation in support of screening-level chemical assessments

J Nyffeler, C Willis, FR Harris, MJ Foster… - Toxicology and applied …, 2023 - Elsevier
Abstract 'Cell Painting'is an imaging-based high-throughput phenotypic profiling (HTPP)
method in which cultured cells are fluorescently labeled to visualize subcellular structures …

[HTML][HTML] Evolution and impact of high content imaging

GP Way, H Sailem, S Shave, R Kasprowicz… - Slas Discovery, 2023 - Elsevier
Abstract/outline The field of high content imaging has steadily evolved and expanded
substantially across many industry and academic research institutions since it was first …

Advancing targeted protein degradation via multiomics profiling and artificial intelligence

M Duran-Frigola, M Cigler… - Journal of the American …, 2023 - ACS Publications
Only around 20% of the human proteome is considered to be druggable with small-molecule
antagonists. This leaves some of the most compelling therapeutic targets outside the reach …

A pooled cell painting CRISPR screening platform enables de novo inference of gene function by self-supervised deep learning

S Sivanandan, B Leitmann, E Lubeck, MM Sultan… - bioRxiv, 2023 - biorxiv.org
Pooled CRISPR screening has emerged as a powerful method of map** gene functions
thanks to its scalability, affordability, and robustness against well or plate-specific …

Using Transcriptomics and cell morphology data in drug discovery: the long road to practice

LL Pruteanu, A Bender - ACS Medicinal Chemistry Letters, 2023 - ACS Publications
Gene expression and cell morphology data are high-dimensional biological readouts of
much recent interest for drug discovery. They are able to describe biological systems in …