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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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  "license": "https://creativecommons.org/licenses/by/4.0/legalcode", 
  "@id": "https://doi.org/10.14278/rodare.915", 
  "creator": [
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      "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;", 
      "@type": "Person", 
      "name": "M\u00fcller, Johannes", 
      "@id": "https://orcid.org/0000-0003-1273-2412"
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      "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;", 
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      "@type": "Person", 
      "name": "Schneider, Moritz"
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      "@type": "Person", 
      "name": "Boucsein, Marc", 
      "@id": "https://orcid.org/0000-0002-2800-7373"
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      "name": "von Neubeck, Cl\u00e4re", 
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      "name": "L\u00fchr, Armin", 
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      "@type": "Person", 
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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&nbsp;MeV protons.&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<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 (&ge;&nbsp;26 weeks), a co-aligned DSURQE mouse brain atlas&nbsp;and scanned whole-brain tissue sections with histochemical and immunofluorescent markers for morphology (H&amp;E), cell nuclei (DAPI), astrocytes (GFAP), microglia (Iba1), the intermediate filament protein Nestin, proliferation (Ki67), neurons (NeuN) and oligodendrocytes (OSP).&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<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.&nbsp;&nbsp;</p>\n\n<p>We provide the data in raw format and as aligned data sets, as well as their spatial transformations.</p>", 
  "datePublished": "2021-01-20", 
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Publication date:
January 20, 2021
DOI:
10.14278/rodare.915

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DOI 

10.14278/rodare.915

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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
Referenced by:
https://www.hzdr.de/publications/Publ-31469
Communities:
License (for files):
Creative Commons Attribution 4.0 International

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Version 0.3.1 10.14278/rodare.1849 Sep 21, 2022
Version 0.3.1 10.14278/rodare.915 Jan 20, 2021
Version 0.3 10.14278/rodare.810 Jan 20, 2021
Version 0.2.2 10.14278/rodare.801 Jan 20, 2021
Version 0.2.1 10.14278/rodare.794 Jan 20, 2021
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