Datasets created by members of the ORMIR community:

Species Anatomy Image characteristics Paper Link to repository
Human Trabecular bone (micro CT) Segmented trabecular bone samples and corresponding distance tranforms Abstract at QMSKI 2024 Zenodo
Human Radius and tibia (HR-pQCT) 1 radius and 1 tibia acquired with standard protocol (82µ) No publication available Zenodo
Human Knee (MR) About 100 OAI images with corresponding femoral cartilage masks, thicknesses, and relaxometry Bonaretti S. et al. pyKNEEr: An image analysis workflow for open and reproducible research on femoral knee cartilage Zenodo
Synthetic data Spheres, cylinders, and plates Synthetic shapes for algorithm comparison No publication available Zenodo
Mouse Knee (µCT) 22 images of trabecular bone at the proximal tibia Lau A. et al. Joint bleeding in factor VIII deficient mice causes an acute loss of trabecular bone and calcification of joint soft tissues which is prevented with aggressive factor replacement Zenodo

Dataset of MSK images available online:

Species Anatomy Image characteristics Paper Link to repository
Human Knee (MR) Masks of bones and cartilages of about 500 images from the OAI dataset Ambellan F. et al. Automated segmentation of knee bone and cartilage combining statistical shape knowledge and convolutional neural networks: Data from the Osteoarthritis Initiative ZIB
Human Knee (MR) 1,370 knee MRI exams performed at Stanford University Medical Center. Bien N. et al. Deep-learning-assisted diagnosis for knee magnetic resonance imaging: Development and retrospective validation of MRNet Stanford repository
Human Knee (MR) 46996 automated segmentations of bones and cartilages from the OAI dataset Tack A. et al. Towards novel osteoarthritis biomarkers: Multi-criteria evaluation of 46,996 segmented knee MRI data from the Osteoarthritis Initiative ZIB
Human Knee (MR) 2399 automated MR knee menisci Tack A. et al. A deep multi-task learning method for detection of meniscal tears in MRI data from the Osteoarthritis Initiative database. ZIB
Human Spine (CT) 160 CT image series of 141 patients with segmentation masks of 1725 vertebrae Sekuboyina A. et al VerSe: A Vertebrae labelling and segmentation benchmark for multi-detector CT images OSF
Human Spine (MR) Collection of single subject datasets across 19 centers and multi-subject datasets across 42 centers (for a total of 260 participants), spanning different MRI manufacturers Cohen-Adad J. et al. Open-access quantitative MRI data of the spinal cord and reproducibility across participants, sites and manufacturers Spine generic

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