In silico analysis is key to understanding bone structure-function relationships in orthopedics and evolutionary biology, but its potential is limited by a lack of standardized, high-quality human bone morphology datasets. This absence hinders research reproducibility and the development of reliable computational models. To overcome this, BoneDat has been developed. It is a comprehensive database containing standardized bone morphology data from 278 clinical lumbopelvic CT scans (pelvis and lower spine). The dataset includes individuals aged 16 to 91, balanced by sex across ten age groups. BoneDat provides curated segmentation masks, normalized bone geometry (volumetric meshes), and reference morphology templates organized by sex and age. By offering standardized reference geometry and enabling shape normalization, BoneDat enhances the repeatability and credibility of computational models. It also allows for integrating other open datasets, supporting the training and benchmarking of deep learning models and accelerating their path to clinical use.

Department of Anatomy Faculty of Medicine in Hradec Kralove Hradec Kralove 500 03 Czechia

Institute of New Technologies and Applied Informatics Faculty of Mechatronics Informatics and Interdisciplinary Studies Technical University of Liberec Liberec 461 17 Czechia

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Pappalardo, F. PubMed

Viceconti, M. PubMed PMC

Benca, E., Amini, M. & Pahr, D. H. Effect of CT imaging on the accuracy of the finite element modelling in bone. PubMed PMC

Aldieri, A. PubMed PMC

Grassi, L., Vaananen, S. P. & Isaksson, H. Statistical shape and appearance models: Development towards improved osteoporosis care. PubMed PMC

La Mattina, A. A., Baruffaldi, F., Taylor, M. & Viceconti, M. Statistical properties of a virtual cohort for PubMed PMC

Pascoletti, G.

Henyš, P. PubMed

Avants, B. B. PubMed PMC

Rorden, C., Bonilha, L., Fridriksson, J., Bender, B. & Karnath, H.-O. Age-specific CT and MRI templates for spatial normalization. PubMed PMC

Lee, W. Construction and validation of a brain magnetic resonance imaging template for normal older koreans. PubMed PMC

Ma, F. A cortical surface template for human neuroscience. PubMed PMC

Lösel, P. D. PubMed PMC

McCormick, M., Liu, X., Jomier, J., Marion, C. & Ibanez, L. Itk: Enabling reproducible research and open science. PubMed PMC

Henyš, P., Dall’Ara, E. & Martelli, S. Symmetric normalization algorithm for estimating physiological strain in bones.

Geuzaine, C. & Remacle, J.-F. Gmsh: A 3-d finite element mesh generator with built-in pre-and post-processing facilities.

Henyš, P. & Hammer, N. Sacroiliac joint auricular surface morphology modulates its mechanical environment. PubMed PMC

Henyš, P., & Kuchař, M. BoneDat, a database of standardized bone morphology for in-sillico analyses. Zenodo 10.5281/zenodo.15189761 (2025). PubMed PMC

Bartenschlager, S., Dankerl, P., Chaudry, O., Uder, M. & Engelke, K. Bmd accuracy errors specific to phantomless calibration of ct scans of the lumbar spine. PubMed

Michalski, A. S., Besler, B. A., Michalak, G. J. & Boyd, S. K. Ct-based internal density calibration for opportunistic skeletal assessment using abdominal ct scans. PubMed

Lorenzon, L. PubMed PMC

International Commission on Radiation Units and Measurements (ICRU). Photon, electron, proton and neutron interaction data for body tissues.

Baudin, M., Dutfoy, A., Iooss, B. & Popelin, A.-L. Open turns: An industrial software for uncertainty quantification in simulation.

Henyš, P., Sutula, D., Kopal, J., Kuchař, M. & Čapek, L. Localising the smallest stiffness and its direction of a homogeneous structure by spectral and optimisation approaches.

Kuchař, M., Henyš, P., Rejtar, P. & Hájek, P. Shape morphing technique can accurately predict pelvic bone landmarks. PubMed

Kuchař, M. PubMed PMC

Kuchař, M. PubMed

Henyš, P. & Hammer, N. Sacroiliac joint auricular surface morphology modulates its mechanical environment. PubMed PMC

Salerno, G., Daniels, I. R., Brown, G., Heald, R. J. & Moran, B. J. Magnetic resonance imaging pelvimetry in 186 patients with rectal cancer confirms an overlap in pelvic size between males and females. PubMed

BoneDat, a database of standardized bone morphology for in silico analyses