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

posted on 12.11.2020, 23:50 by C. Shan XuC. Shan Xu, Gleb Shtengel, Davis Bennett, Aubrey WeigelAubrey Weigel, Amalia Pasolli, Harald HessHarald Hess

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:

Visualization Website:

Publication Reference: Xu et al., 2017 (10.7554/eLife.25916), Xu et al., 2020 (10.1007/978-1-0716-0691-9_12)