Epiphyseal Cartilage Vascular Architecture at the Distal Humeral Osteochondritis Dissecans Predilection Site in Juvenile Pigs

<p>This dataset contains all the raw source data and MATLAB analysis functions that comprise the study:</p><p>&nbsp;</p><h2><strong>Epiphyseal Cartilage Vascular Architecture at the Distal Humeral Osteochondritis Dissecans Predilection Site in Juvenile Pigs</strong></h2><p>&nbsp;</p><h4>Journal of Orthopaedic Research | DOI: &nbsp;https://doi.org/10.1002/jor.25732</h4><p>&nbsp;</p><p>&nbsp;</p><p><strong>Ferenc Tóth</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota</p><p><strong>Mikko J. Nissi</strong>, Department of Technical Physics, University of Eastern Finland &nbsp;</p><p><strong>Alexandra R. Armstrong</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota</p><p><strong>Erick O. Buko</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota; Center for Magnetic Resonance Research, University of Minnesota &nbsp;</p><p><strong>Casey P. Johnson</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota; Center for Magnetic Resonance Research, University of Minnesota</p><p>&nbsp;</p><p>&nbsp;</p><p>Corresponding author (whole study):</p><p>Ferenc Tóth</p><p>The University of Minnesota</p><p>1365 Gortner Ave., St. Paul, MN 55108</p><p>Tel.: 612-624-7727</p><p>Fax.: 612-624-8753</p><p>email: ftoth@umn.edu</p><p>&nbsp;</p><p>&nbsp;</p><p>&nbsp;</p><p>Corresponding author (data set):</p><p>Mikko J. Nissi</p><p>Department of Technical Physics</p><p>University of Eastern Finland</p><p>POB 1627, FI-70211, Kuopio, Finland</p><p>+358-50-5955517</p><p>mikko.nissi@uef.fi</p><p>&nbsp;</p><p>&nbsp;</p><p>Keywords: OCD, MRI, humerus, vasculature, pathogenesis, quantitative susceptibility mapping</p><p>&nbsp;</p><p>&nbsp;</p><p>&nbsp;</p><p>Included folders and files are:</p><p>3-D_visualizations</p><p>&nbsp; &nbsp;- 3D_models: 3-D models of the specimens (Rhinoceros .3dm files)</p><p>&nbsp; &nbsp;- Raw_Animation_files: .png format animation image exports</p><p>&nbsp; &nbsp;- Ready_Animation_videos: .mp4 / .mov supplementary animation movie clips and Blender video edition files</p><p>&nbsp; &nbsp;- Visualizations_w_different_lambda: visualizations of the resulting 3-D models with different MEDI L1 lambda values</p><p>&nbsp;</p><p>Figure_parts</p><p>&nbsp; &nbsp;- Sub-parts of various manuscript figures</p><p>&nbsp;</p><p>Histo_images</p><p>&nbsp; &nbsp;- Collections of histological images of the specimens in a powerpoint file</p><p>&nbsp;</p><p>raw_MRI_data</p><p>&nbsp; &nbsp;- RAW Varian/Agilent MRI data for all specimens</p><p>&nbsp; &nbsp;- Pre-processed data for each specimen:</p><p>&nbsp; &nbsp; &nbsp; &nbsp;- Segmentation masks (epiphyseal cartilage, SOC) and ROI files (for Aedes)</p><p>&nbsp; &nbsp; &nbsp; &nbsp;- QSM data processed as described in the manuscript, using the mask provided (VSHARP + MEDI), using MEDI-toolbox</p><p>&nbsp; &nbsp; &nbsp; &nbsp;- Binary image created from the QSM data via highest-correlating binary threshold</p><p>&nbsp; &nbsp; &nbsp; &nbsp;- 3-D .stl files for</p><p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- AECC (articular-epiphyseal cartilage-complex)</p><p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- SOC (secondary ossification center)</p><p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- vasculature (from the binary-threshold-QSM data)</p><p>&nbsp;</p><p>matlab_functions</p><p>&nbsp; &nbsp;- Collection of matlab functions the analysis script requires</p><p>&nbsp;</p><p>data_processing_script.m: &nbsp;Matlab script for producing data visualizations for most of the manuscript figures &nbsp;</p><p>scan_protocol_by_sample.xls: &nbsp;Excel file listing the primary scan parameters for each specimen</p><p>README.txt: &nbsp;this file</p><p>&nbsp;</p><p>&nbsp;</p><p>(Mikko Nissi, Nov 17, 2023)</p><p>&nbsp;</p><p>&nbsp;</p>