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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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In 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 (&amp;ge;&amp;nbsp;26 weeks), a co-aligned DSURQE mouse brain atlas&amp;nbsp;and scanned whole-brain tissue sections with histochemical and immunofluorescent markers for morphology (H&amp;amp;E), cell nuclei (DAPI), astrocytes (GFAP), microglia (Iba1), the intermediate filament protein Nestin, proliferation (Ki67), neurons (NeuN) and oligodendrocytes (OSP).&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&amp;nbsp;&lt;br&gt;
The 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.&amp;nbsp;&amp;nbsp;&lt;/p&gt;

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Publication date:
January 20, 2021
DOI:
10.14278/rodare.794

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10.14278/rodare.794

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Preclinical Image fusion Proton radiation Medical imaging Histology
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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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Müller, Johannes, Suckert, Theresa, Beyreuther, Elke, Schneider, Moritz, Boucsein, Marc, Bodenstein, Elisabeth, … Dietrich, Antje. (2021). Slice2Volume: Fusion of multimodal medical imaging and light microscopy data of irradiation-injured brain tissue in 3D. (Version 0.2.1) [Data set]. Rodare. http://doi.org/10.14278/rodare.794
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