Supporting data for "A dataset of images and morphological profiles of 30,000 small-molecule treatments using the Cell Painting assay"
Dataset type: Imaging
Data released on December 05, 2016
Bittker JA; Bodycombe NE; Bray MA; Clemons PA; Dančík V; Golub TR; Gustafsdottir SM; Hasaka TP; Hon CS; Kemp MM; Li K; Ljosa V; Schreiber SL; Singh S; Sokolnicki KL; Walpita D; Wawer MJ; Carpenter AE; Shamji AF (2016): Supporting data for "A dataset of images and morphological profiles of 30,000 small-molecule treatments using the Cell Painting assay" GigaScience Database. http://dx.doi.org/10.5524/100200
Large-scale image sets acquired by automated microscopy of perturbed samples enable a detailed comparison of cell states induced by each treatment. Highly multiplexed measurements of cellular morphology can be extracted from each image and subsequently mined for a number of applications.
This microscopy dataset includes 919,874 five-channel fields of view representing 30,616 tested compounds. The images are available at The Cell Image Library repository. All additional data files are available from GigaDB, including; morphological features derived from each cell in each image, both at the single-cell level and population-averaged (i.e., the per-image level); the image analysis workflows that generated the morphological features are also provided. Quality-control metrics are provided as metadata, indicating fields of view that are out-of-focus (blurry) or containing highly fluorescent material or debris. Lastly, chemical annotations are supplied for the compound treatments applied.
Because computational algorithms and methods for handling single-cell morphological measurements are not yet routine, the dataset serves as a useful resource for the wider scientific community applying morphological (image-based) profiling. The dataset can be mined for many purposes, including small-molecule library enrichment and chemical mechanism-of-action studies, including target identification. Integration with genetically-perturbed datasets could enable identification of small-molecule mimetics of particular disease- or gene-related phenotypes that could be useful as probes or potential starting points for development of future therapeutics.
Read the peer-reviewed publication(s):
Bray, M.-A., Gustafsdottir, S. M., Rohban, M. H., Singh, S., Ljosa, V., Sokolnicki, K. L., … Carpenter, A. E. (2017). A dataset of images and morphological profiles of 30 000 small-molecule treatments using the Cell Painting assay. GigaScience, 6(12), 1–5. doi:10.1093/gigascience/giw014
There is a new version of this dataset available at: DOI: 10.5524/100351
|Sample ID||Taxonomic ID||Common Name||Genbank Name||Scientific Name||Sample Attributes|
|U2OS cell line||9606||Human||human||Homo sapiens|| Sex:female|
Alternative names:ATCC HTB-96