Dataset Open Access
Slice2Volume: Fusion of multimodal medical imaging and light microscopy data of irradiation-injured brain tissue in 3D.
Müller, Johannes;
Suckert, Theresa;
Beyreuther, Elke;
Schneider, Moritz;
Boucsein, Marc;
Bodenstein, Elisabeth;
Stolz-Kieslich, Liane;
Krause, Mechthild;
von Neubeck, Cläre;
Haase, Robert;
Lühr, Armin;
Dietrich, Antje
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"orcid": "0000-0003-1776-9556"
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"name": "von Neubeck, Cl\u00e4re",
"affiliation": "OncoRay - National Center for Radiation Research in Oncology, Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universit\u00e4t Dresden, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, 01309, Germany; German Cancer Consortium (DKTK), Partner Site Dresden, and German Cancer Research Center (DKFZ), Heidelberg, 69120, Germany; Department of Particle Therapy, University Hospital Essen, University of Duisburg-Essen, Essen, Germany",
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"affiliation": "DFG Cluster of Excellence Physics of Life, TU Dresden",
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"name": "L\u00fchr, Armin",
"affiliation": "OncoRay - National Center for Radiation Research in Oncology, Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universit\u00e4t Dresden, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, 01309, Germany; Helmholtz-Zentrum Dresden-Rossendorf, Institute of Radiooncology - OncoRay, Dresden, 01309, Germany; German Cancer Consortium (DKTK), Partner Site Dresden, and German Cancer Research Center (DKFZ), Heidelberg, 69120, Germany; TU Dortmund, Dortmund, Germany",
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"Suckert, Theresa et al. (2019): High-precision image-guided proton irradiation of mouse brain sub-volumes",
"Bogovic, J. A. et al. (2016): Robust registration of calcium images by learned contrast synthesis",
"S. Klein et al. (2010), elastix: a toolbox for intensity based medical image registration"
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"description": "<p>The dataset contains comprehensive image data for a total of nine mice, which underwent normal tissue brain irradiation with 90 MeV protons. <br>\nIn particular, the image data comprise cone-bem computed tomographies (CBCT), Monte Carlo beam transport simulations based on those CTs, regular magnetic resonance imaging (MRI) follow-up (≥ 26 weeks), a co-aligned DSURQE mouse brain atlas and scanned whole-brain tissue sections with histochemical and immunofluorescent markers for morphology (H&E), cell nuclei (DAPI), astrocytes (GFAP), microglia (Iba1), the intermediate filament protein Nestin, proliferation (Ki67), neurons (NeuN) and oligodendrocytes (OSP). <br>\nThe volumetric image data (i.e. CBCT, MRI and brain atlas) were co-aligned using the ImageJ plugin Big Warp. The CBCT data was used as spatial reference to allow for mask-based, slice-wise alignment of CBCT and light microscopy image data in 3D with the scriptable registration tool Elastix. </p>\n\n<p>We provide the data in raw format and as aligned data sets, as well as their spatial transformations.</p>"
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7,671
34,033
views
downloads
| All versions | This version | |
|---|---|---|
| Views | 7,671 | 775 |
| Downloads | 34,033 | 1,551 |
| Data volume | 379.3 TB | 18.8 TB |
| Unique views | 4,374 | 354 |
| Unique downloads | 9,932 | 415 |
- Publication date:
- January 20, 2021
- DOI:
-
- Keyword(s):
- Preclinical Image fusion Proton radiation Medical imaging Histology
- Grants:
-
European Commission:
- INSPIRE - INfraStructure in Proton International REsearch (730983)
- Related identifiers:
- Identical to:
https://www.hzdr.de/publications/Publ-32124 - Communities:
- License (for files):
- Creative Commons Attribution 4.0 International