I am working in the laboratory of Thomas B. Poulsen at Department of Chemistry, Aarhus University, Denmark
We are currently working on establishing a Cell Painting platform. In this regard we have some questions for the image analysis and if we can utilize previous data. I will split our questions into three topics here on the forum to make it more manageable.
We would like to use the Cell Paining assay to profile compounds we synthesize ourselves and compare them against profiles of compounds with a known mode-of-action. Since we already have data available from previous work (eg. Bray et al 2017, GigaScience), we hope that we do not have to generate the images with known compounds ourselves but that we can simply compare to the available profiles.
Do you foresee any issues with using the available profiles from eg. the 2017 Bray et al paper in GigaScience? We are not sure whether the different microscope optics and camera will influence the data so that the profiles are not comparable. We have acquired a CellDiscoverer 7 automated microscope from Zeiss to facilitate the image acquisition.
We are planning to profile some of the compounds already present in the previous data as a control. We would then expect these compounds to cluster closely to themselves. We expect this would work as assay validation. Could there be other or better ways to validate our approach?
With Kind Regards
Esben B. Svenningsen, Ph.D. Student
Aarhus University, Denmark
Department of Chemistry, Thomas B. Poulsen
Bray, M. A. et al, Gigascience, 2017, 6, 1–5.
Bray, M. A. et al, Nat. Protoc, 2016, 11, 1757–1774.