Isotropic 3D electron microscopy reference data of wild-type, interphase HeLa cell (jrc_hela-1)

HeLa cells, human cervical cancer cells that are the oldest and most commonly used cell line, are easily cultured and widely used in cell biology labs as a basic model to test diverse hypotheses. Having such cells imaged in their entirety can provide a reference to which perturbations in growth, genetic, environment, etc. can be compared. Here we present a typical 3D data set of 8-nm voxel sampling on the example of the entire HeLa cell. The mitochondrial network is clearly identified, as well as 2D cross-sections of standard cellular organelles, such as centrosome, Golgi apparatus, and nuclear envelope. Sample: Wild-type, interphase HeLa cell Protocol: High pressure freezing, freeze-substitution resin embedding with 2% OsO4 0.1% UA 3% H2O in acetone; resin embedding in Eponate 12. Contributions: Sample provided by Aubrey Weigel (HHMI/Janelia), prepared for imaging by Gleb Shtengel (HHMI/Janelia), with imaging and post-processing by C. Shan Xu (HHMI/Janelia). Dataset ID: jrc_hela-1 Final voxel size (nm): 8.0 x 8.0 x 8.0 (X, Y, Z) Dimensions (µm): 75 x 8 x 60 (X, Y, Z) Acquisition date: 2017-04-05 Dataset URL: s3://janelia-cosem-datasets/jrc_hela-1/jrc_hela-1.zarr/recon-1/em/ Visualization Website: https://openorganelle.janelia.org/datasets/jrc_hela-1 Publication Reference: Xu et al., 2017 (10.7554/eLife.25916), Xu et al., 2020 (10.1007/978-1-0716-0691-9_12)