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 …

Evaluating batch correction methods for image-based cell profiling

J Arevalo, E Su, JD Ewald, R van Dijk… - Nature …, 2024 - nature.com
High-throughput image-based profiling platforms are powerful technologies capable of
collecting data from billions of cells exposed to thousands of perturbations in a time-and cost …

Morphological profiling for drug discovery in the era of deep learning

Q Tang, R Ratnayake, G Seabra, Z Jiang… - Briefings in …, 2024 - academic.oup.com
Morphological profiling is a valuable tool in phenotypic drug discovery. The advent of high-
throughput automated imaging has enabled the capturing of a wide range of morphological …

JUMP Cell Painting dataset: morphological impact of 136,000 chemical and genetic perturbations

SN Chandrasekaran, J Ackerman, E Alix, DM Ando… - BioRxiv, 2023 - biorxiv.org
Image-based profiling has emerged as a powerful technology for various steps in basic
biological and pharmaceutical discovery, but the community has lacked a large, public …

Cell Painting Gallery: an open resource for image-based profiling

E Weisbart, A Kumar, J Arevalo, AE Carpenter… - Nature …, 2024 - nature.com
Image-based or morphological profiling is a rapidly expanding field wherein cells are
'profiled'by extracting hundreds to thousands of unbiased, quantitative features from images …

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 phenoty** to define the genetic basis of cellular morphology

M Tegtmeyer, J Arora, S Asgari, BA Cimini… - Nature …, 2024 - nature.com
The morphology of cells is dynamic and mediated by genetic and environmental factors.
Characterizing how genetic variation impacts cell morphology can provide an important link …

Self-supervision advances morphological profiling by unlocking powerful image representations

V Kim, N Adaloglou, M Osterland, FM Morelli… - Scientific Reports, 2025 - nature.com
Cell Painting is an image-based assay that offers valuable insights into drug mechanisms of
action and off-target effects. However, traditional feature extraction tools such as CellProfiler …

Predicting the mitochondrial toxicity of small molecules: insights from mechanistic assays and cell painting data

M Garcia de Lomana, PA Marin Zapata… - Chemical Research in …, 2023 - ACS Publications
Mitochondrial toxicity is a significant concern in the drug discovery process, as compounds
that disrupt the function of these organelles can lead to serious side effects, including liver …