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

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