BodyParts3D: 3D structure database for anatomical concepts

Abstract

BodyParts3D is a dictionary-type database for anatomy in which anatomical concepts are represented by 3D structure data that specify corresponding segments of a 3D whole-body model for an adult human male. It encompasses morphological and geometrical knowledge in anatomy and complements ontological representation. Moreover, BodyParts3D introduces a universal coordinate system in human anatomy, which may facilitate management of samples and data in biomedical research and clinical practice. As of today, 382 anatomical concepts, sufficient for mapping materials in most molecular medicine experiments, have been specified. Expansion of the dictionary by adding further segments and details to the whole-body model will continue in collaboration with clinical researchers until sufficient resolution and accuracy for most clinical application are achieved. BodyParts3D is accessible at: http://lifesciencedb.jp/ag/bp3d/.

Development of a lower extremity model for high strain rate impact loading

“…Anatomical models of the lower extremity, including the full lower extremity and the extremity below the knee, have been created based on a repository of anatomical geometry made available by the University of Tokyo (Mitsuhashi et al, 2009). This geometry was scaled and positioned appropriately using a surface editing software (Blender Foundation, 1995).…”

“…Geometry for the lower extremity model was derived from an anatomical dictionary made available by the Database Center for Life Science, a research institute at the University of Tokyo (Mitsuhashi et al, 2009). This anatomical resource provides geometry based on a full body MRI scan of a male volunteer.…”

“…This anatomical resource provides geometry based on a full body MRI scan of a male volunteer. This MRI data was supplemented using medical textbooks, atlases, and anatomical drawings (Mitsuhashi et al, 2009). The full body model from this repository was utilised to develop surfaces for the lower extremity skeleton and soft tissue.…”

Dynamic skin deformation simulation using musculoskeletal model and soft tissue dynamics

“…With this approach, the research focus has been on modeling the shape and deformation of muscles to reduce artifacts and express details in skin deformation. The muscle shape has been approximated using ellipsoids [12], or learned from anatomical data as in BodyParts3D [13]. Deformation of muscles and soft tissues is often simulated by physics-based models such as mass-spring-damper models [14] and volumetric models such as the finite element method [15][16][17] or the finite volume method [18].…”

A Three-Dimensional Anatomically Accurate Finite Element Model for Nerve Fiber Activation Simulation Coupling

“…A screenshot of the BodyParts3D online database, which allows the user to select individual objects or organize by systems [20] To support the understanding of the model defined in this work, the following are presented: an overview of the anatomy and physiology of the human nervous system and nerve cells, relevant conditions and disorders, the significance and implementation of computational modelling, and a review of previous work contributing to this study.…”