| _version_ | 1866901144196874240 |
|---|---|
| author | Varnavides, Georgios |
| author_facet | Varnavides, Georgios |
| contents | <p>4D-STEM dataset of an apoferritin protein, produced from the "biological assembly" file from the <a href="https://www.rcsb.org/structure/8RQB">RCSB PDB 8rqb record</a>. The protein model was embedded in vitreous-ice using the continuum water model described in <a href="https://doi.org/10.1016/j.jsb.2012.04.021">https://doi.org/10.1016/j.jsb.2012.04.021</a>.</p> <p>The following parameters were used:</p> <ul> <li>Convergence semiangle: 4 mrad</li> <li>Acceleration voltage: 300 kV</li> <li>Defocus: 1.5 um</li> <li>Scan step-size: 3.555 A</li> <li>Diffraction pixel-size: 0.307617 mrad</li> <li>Relative diffraction-scan coordinates rotation: -15 deg</li> <li>Poisson noise: 30 e / A^2 (followed by binarization, such that diffraction pattern values are either 0 or 1)</li> </ul> <p>Simulation performed using the <a href="https://abtem.readthedocs.io/en/latest/intro.html">abTEM</a> software, using code similar to this <a href="https://github.com/electronmicroscopy/quantem-tutorials/blob/main/simulation_notebooks/apoferritin-pdb-dataset.ipynb">tutorial notebook</a>.</p> |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_18346854 |
| institution | Zenodo |
| language | |
| publishDate | 2026 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | Simulated low-dose 4DSTEM apoferritin dataset Varnavides, Georgios 4DSTEM Parallax Imaging Ptychography Electron Microscopy <p>4D-STEM dataset of an apoferritin protein, produced from the "biological assembly" file from the <a href="https://www.rcsb.org/structure/8RQB">RCSB PDB 8rqb record</a>. The protein model was embedded in vitreous-ice using the continuum water model described in <a href="https://doi.org/10.1016/j.jsb.2012.04.021">https://doi.org/10.1016/j.jsb.2012.04.021</a>.</p> <p>The following parameters were used:</p> <ul> <li>Convergence semiangle: 4 mrad</li> <li>Acceleration voltage: 300 kV</li> <li>Defocus: 1.5 um</li> <li>Scan step-size: 3.555 A</li> <li>Diffraction pixel-size: 0.307617 mrad</li> <li>Relative diffraction-scan coordinates rotation: -15 deg</li> <li>Poisson noise: 30 e / A^2 (followed by binarization, such that diffraction pattern values are either 0 or 1)</li> </ul> <p>Simulation performed using the <a href="https://abtem.readthedocs.io/en/latest/intro.html">abTEM</a> software, using code similar to this <a href="https://github.com/electronmicroscopy/quantem-tutorials/blob/main/simulation_notebooks/apoferritin-pdb-dataset.ipynb">tutorial notebook</a>.</p> |
| title | Simulated low-dose 4DSTEM apoferritin dataset |
| topic | 4DSTEM Parallax Imaging Ptychography Electron Microscopy |
| url | https://doi.org/10.5281/zenodo.18346854 |