Gastruloid phenotype live cell imaging dataset

Overview The images were taken every 6 hours for 2 days (48 hours), resulting in 9 frames per gastruloid. 1,058 total gastruloids were grown, evenly split between euploid (array1) and aneuploid (array2) conditions, resulting in ~9,500 images, of which 9,252 are included here (with the remaining removed due to substaintial technical artifacts obscuring a large (>50%) portion of the gastruloid). Each image is a 128x128 pixel png file. To increase contrast and reduce background lighting effects, we applied a gaussian blur (sigma=50) and background removal before normalization. The filenames contain metadata about each of the images in the form: <collection_date>_<staining>_<array1/array2>_<sample_number>_<timepoint>.png Curation Time-series transmitted light and fluorescence imaging of the gastruloids were performed using a custom microscopy system enclosed within an incubation chamber maintaining constant temperature, CO2, and humidity levels as previously described. Notably, the system consisted of an inverted MVX10 MacroView fluorescence microscope (Evident Scientific, Tokyo, Japan) with a 2x wide-field objective and was illuminated by a Lumen 200 mercury lamphouse (Prior Scientific Inc., Rockland, MA) through a 8907 ET - ECFP/EYFP/DsRed filter set (Chroma Technology Corp, Bellow Falls, VT). Images were acquired every 6 h over 48 h at 4x magnification (1.7 µm/pixel). The python file used to do background correction and normalization of the images in this dataset is also includuded in this repository. The primary codebase associated with this project can be found here.