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BodyParts3D: 3D structure database for anatomical concepts

N. Mitsuhashi, K. Fujieda, T. Tamura, S. Kawamoto, T. Takagi, K. Okubo
2009 Nucleic Acids Research  
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  ...  ACKNOWLEDGEMENTS We thank 'TARO' development team for generously providing their data.  ...  'TARO' is a voxel model phantom for radio-frequency electromagnetic-field dosimetry developed by the National Institute of Information and Communications Technology (NICT), Kitasato University, Keio University  ... 
doi:10.1093/nar/gkn613 pmid:18835852 pmcid:PMC2686534 fatcat:as6s5oj4nrfkzjqhujg33mzr4u

The Anatomical Edutainer [article]

Marwin Schindler, Hsiang-Yun Wu, Renata Georgia Raidou
2020 arXiv   pre-print
distinct anatomical structures through user interaction.  ...  ., data representations by means of physical objects) have been used for many centuries in medical and anatomical education. Recently, 3D printing techniques started also to emerge.  ...  These are generic anatomical 3D models, representing different parts of the human body, which we acquired from the BodyParts3D database [15] .  ... 
arXiv:2010.09850v1 fatcat:ecf6aceidrey3asprpcpa672de

A Serious Game for the Cardiovascular System Anatomy

Karolini Conceição, Robson Lemos, Patricia Fiuza, Cristian Cechinel, Cristiane Rudolph
2019 International journal for innovation education and research  
From the data analysis, it has been observed an increase in the educational performance of the students with the use of the serious game to aid teaching of the cardiovascular system anatomy in a virtual 3D  ...  The 3D objects responsible for the representation of anatomical structures were obtained from the BodyParts3D© database [23] (with permission "BodyParts3D©, The Database Center for Life Science licensed  ...  On top of that, a panel, containing the anatomical structure including interaction and 3D visualization capabilities, is available for each question.  ... 
doi:10.31686/ijier.vol7.iss12.2018 fatcat:hjf5vvgkb5hgnnwun2kbrsnszq

Slice and Dice: A Physicalization Workflow for Anatomical Edutainment [article]

Renata G. Raidou, M. Eduard Gröller, Hsiang-Yun Wu
2020 arXiv   pre-print
Still, anatomical models are often preferred, as they facilitate 3D localization of anatomical structures.  ...  We investigate alternative forms of physicalizations, which use readily available technologies (home printers) and inexpensive materials (paper or semi-transparent films) to generate crafts for anatomical  ...  The head and heart meshes are from the BodyParts3D database [MFT * 09]. Results for different levels (L) of octree partitioning, for an artificial configuration of five meshes (top view).  ... 
arXiv:2011.05689v1 fatcat:n5dx5x7h6fg6tfiw74qufndhtu

The Open Anatomy Browser: A Collaborative Web-Based Viewer for Interoperable Anatomy Atlases

Michael Halle, Valentin Demeusy, Ron Kikinis
2017 Frontiers in Neuroinformatics  
OABrowser displays threedimensional anatomical models, image cross-sections of labeled structures and source radiological imaging, and a text-based hierarchy of structures.  ...  The atlas source data, processing tools, and the source for OABrowser are freely available through GitHub and are distributed under a liberal open source license.  ...  Bill Lorensen has been a supportive and knowledgeable advocate for open atlases for many years, and assisted us with testing and the conversion of the MindBoggle atlas.  ... 
doi:10.3389/fninf.2017.00022 pmid:28396633 pmcid:PMC5366788 fatcat:ozpjlzzqwjaepftq2btqbecm5u

SemAnatomy3D: Annotation of Patient-Specific Anatomy [article]

Imon Banerjee, Giuseppe Patanè, Michela Spagnuolo
2015 Smart Tools and Applications in Graphics  
We specialized our framework for the carpal region, but, in principle, it can support similar tasks for other anatomical districts.  ...  In the digital age of medicine, patient-specific 3D anatomical reconstructions are becoming increasingly relevant in several applications, starting from bio-mechanical simulation, virtual surgery, implant  ...  Acknowledgement This work is supported by the FP7 Marie Curie Initial Training Network "MultiScaleHuman": Multi-scale Biological Modalities for Physiological Human Articulation (2011)(2012)(2013)(2014)  ... 
doi:10.2312/stag.20151292 dblp:conf/egItaly/BanerjeePS15 fatcat:3x2rn6g3tfdyphf5apvob5zm7a

RefEx, a reference gene expression dataset as a web tool for the functional analysis of genes

Hiromasa Ono, Osamu Ogasawara, Kosaku Okubo, Hidemasa Bono
2017 Scientific Data  
RefEx also provides information about genes with tissue-specific expression, and the relative gene expression values are shown as choropleth maps on 3D human body images from BodyParts3D.  ...  archived in several public databases.  ...  BodyParts3D, which was developed by the Database Center for Life Science (DBCLS), is a dictionary-type anatomy database in which anatomical concepts are represented by 3D structural data that specify the  ... 
doi:10.1038/sdata.2017.105 pmid:28850115 pmcid:PMC5574374 fatcat:hl4qdkkhpbac3jvowvvretbyn4

3D Printing Improved Testicular Prostheses: Using Lattice Infill Structure to Modify Mechanical Properties

Jacob Skewes, Michael Y. Chen, David Forrestal, Nicholas J. Rukin, Maria A. Woodruff
2021 Frontiers in Surgery  
We aim to create a 3D printable testicular prosthesis which mimics the natural shape and stiffness of a human testicle using a lattice infill structure.  ...  Porous testicular prostheses were engineered with relative densities from 0.1 to 0.9 using a repeating cubic unit cell lattice inside an anatomically accurate testicle 3D model.  ...  The testicular prosthesis model and shape was adapted from the BodyParts3D database (16), a collection of anatomical 3D models of an adult human male.  ... 
doi:10.3389/fsurg.2021.626143 pmid:33959629 pmcid:PMC8093764 fatcat:gvu2i6hdqvf6plmzdcmto5qlqi

Blood flow contributions to cancer metastasis

Francesc Font-Clos, Stefano Zapperi, Caterina A.M. La Porta
2020 iScience  
a high-resolution humanoid model of global blood circulation, including stochastic adhesion events, and comparing the results with the location of metastasis recorded in thousands of human autopsies for  ...  BodyParts3D: 3D structure database for anatomical concepts. Nucleic Acids Res. 37, D782-D785. , and Xu, R. (2015). Pattern of distant metastases in colorectal cancer: a seer based study.  ...  Later in 1929, Ewing stressed the importance for metastatic dissemination of mechanical and geometrical factors resulting from the anatomical structure of the vascular system and the associated hemodynamic  ... 
doi:10.1016/j.isci.2020.101073 pmid:32361595 pmcid:PMC7200936 fatcat:l2gpsp3cojhjtmkpvffhjmtrum

Three-dimensional printing of complex biological structures by freeform reversible embedding of suspended hydrogels

T. J. Hinton, Q. Jallerat, R. N. Palchesko, J. H. Park, M. S. Grodzicki, H.-J. Shue, M. H. Ramadan, A. R. Hudson, A. W. Feinberg
2015 Science Advances  
Proof-of-concept structures based on femurs, branched coronary arteries, trabeculated embryonic hearts, and human brains were mechanically robust and recreated complex 3D internal and external anatomical  ...  We demonstrate the additive manufacturing of complex three-dimensional (3D) biological structures using soft protein and polysaccharide hydrogels that are challenging or impossible to create using traditional  ...  For the 3D model of the coronary artery tree, only the outer surface was provided by the BodyParts3D database; hence, the arterial tree was resampled to create a smaller daughter surface with inverted  ... 
doi:10.1126/sciadv.1500758 pmid:26601312 pmcid:PMC4646826 fatcat:5kfl4mphzfgf3pgg3zeodldzrm

Immersive Virtual Reality as a teaching aid for anatomy [chapter]

Laura Mason, Marc Holmes
2019 Proceedings of the Virtual and Augmented Reality to Enhance Learning and Teaching in Higher Education Conference 2018  
Anatomy is a discipline where students are required to identify structures of the human body.  ...  This gamification in an immersive environment was hypothesised to increase students' understanding and retention of anatomical information and was compared to studying from a set of traditional notes.  ...  It seems logical for students to contextualize 3D anatomical structures, anatomical education should allow students the 3D, multisensory interaction which would have been traditionally brought through  ... 
doi:10.1255/vrar2018.ch6 fatcat:4nz3csxeqbg6bik3vouswta7ai

Object Identification Based on the Automated Extraction of Spatial Semantics from Web3D Scenes

Konstantinos Kontakis, Athanasios G. Malamos, Malvina Steiakaki, Spyros Panagiotakis, J. Andrew Ware
2018 Annals of Emerging Technologies in Computing  
We present a web-based methodology for the extraction of semantic information and object identification in poorly annotated Web3D scenes.  ...  The proposed methodology is comprised of real-time techniques with broad application areas, ranging from CAD and 3D room planning tools based on architectural designs, to medical and e-learning environments  ...  These data are publicly available from BodyParts3D [21] , a dictionary-type database for anatomy in which anatomical concepts are represented by segments of a 3D whole-body model of an adult human male  ... 
doi:10.33166/aetic.2018.04.001 fatcat:ywplqwrb6zhwhaadqr67jjbdwe

VisualFlatter - Visual Analysis of Distortions in the Projection of Biomedical Structures

Nicolas Grossmann, Thomas Köppel, Eduard Gröller, Renata Georgia Raidou
2018 Eurographics Workshop on Visual Computing for Biomedicine  
Projections of complex anatomical or biological structures from 3D to 2D are often used by visualization and domain experts to facilitate inspection and understanding.  ...  Representing complex structures, such as organs or molecules, in a simpler 2D way often requires less interaction, while enabling comparability.  ...  the evaluation and for the fruitful discussions.  ... 
doi:10.2312/vcbm.20181242 dblp:conf/vcbm/GrossmannKGR18 fatcat:77occs27lvf3xkmmmxh4icxq4u

Towards an easier creation of three-dimensional data for embedding into scholarly 3D PDF (Portable Document Format) files

Axel Newe
2015 PeerJ  
This article introduces a new solution for the creation of three of types of 3D geometry (point clouds, polylines and triangle meshes), that is based on MeVisLab, a framework for biomedical image processing  ...  The Portable Document Format (PDF) allows for embedding three-dimensional (3D) models and is therefore particularly suitable to communicate respective data, especially as regards scholarly articles.  ...  ADDITIONAL INFORMATION AND DECLARATIONS Funding The author declares there was no funding for this work.  ... 
doi:10.7717/peerj.794 pmid:25780759 pmcid:PMC4358654 fatcat:qwtud2vi25bzvbwheuqxb4xrqu

Adaptive constrained constructive optimisation for complex vascularisation processes

Gonzalo Daniel Maso Talou, Soroush Safaei, Peter John Hunter, Pablo Javier Blanco
2021 Scientific Reports  
structures.  ...  The capabilities of the DCCO algorithm are assessed with a number of anatomically realistic scenarios.  ...  Its geometrical definition was based on a human brain reconstruction from BodyParts3D database (http://lifes cienc edb.jp/bp3d -The Database Center for Life Science licensed under CC Attribution-Share  ... 
doi:10.1038/s41598-021-85434-9 pmid:33731776 fatcat:zidokgzacbfthowcn44bxh4nh4
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