Software for browsing sectioned images of a dog body and generating a 3D model

Park, Jin Seo; Jung, Yong Wook

doi:10.1002/ar.23200

Cited by 6 publications

(1 citation statement)

References 19 publications

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“…Neuroanatomy atlases, consisting of only sectioned images2 and sectioned images with 7 Tesla (T) magnetic resonance images (MRIs),3 have been published. Using the sectioned images and segmented data, two dimensional applications for personal computers45 and android mobile devices6 have been produced for widespread use. Moreover, surface and volume models of diverse head structures have been produced 789101112.…”

Section: Introductionmentioning

confidence: 99%

Advanced Sectioned Images of a Cadaver Head with Voxel Size of 0.04 mm

et al. 2019

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Background The sectioned images of a cadaver head made from the Visible Korean project have been used for research and educational purposes. However, the image resolution is insufficient to observe detailed structures suitable for experts. In this study, advanced sectioned images with higher resolution were produced for the identification of more detailed structures. Methods The head of a donated female cadaver was scanned for 3 Tesla magnetic resonance images and diffusion tensor images (DTIs). After the head was frozen, the head was sectioned serially at 0.04-mm intervals and photographed repeatedly using a digital camera. Results On the resulting 4,000 sectioned images (intervals and pixel size, 0.04 mm 3 ; color depth, 48 bits color; a file size, 288 Mbytes), minute brain structures, which can be observed not on previous sectioned images but on microscopic slides, were observed. The voxel size of this study (0.04 mm 3 ) was very minute compared to our previous study (0.1 mm 3 ; resolution, 4,368 × 2,912) and Visible Human Project of the USA (0.33 mm 3 ; resolution, 2,048 × 2,048). Furthermore, the sectioned images were combined with tractography of the DTIs to elucidate the white matter with high resolution and the actual color of the tissue. Conclusion The sectioned images will be used for diverse research, including the applications for the cross sectional anatomy and three-dimensional models for virtual experiments.

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Section: Introductionmentioning

confidence: 99%

Advanced Sectioned Images of a Cadaver Head with Voxel Size of 0.04 mm

et al. 2019

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Three-Dimensional Portable Document Format (3D PDF) in Clinical Communication and Biomedical Sciences: Systematic Review of Applications, Tools, and Protocols

Newe

Becker

2018

JMIR Med Inform

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BackgroundThe Portable Document Format (PDF) is the standard file format for the communication of biomedical information via the internet and for electronic scholarly publishing. Although PDF allows for the embedding of three-dimensional (3D) objects and although this technology has great potential for the communication of such data, it is not broadly used by the scientific community or by clinicians.ObjectiveThe objective of this review was to provide an overview of existing publications that apply 3D PDF technology and the protocols and tools for the creation of model files and 3D PDFs for scholarly purposes to demonstrate the possibilities and the ways to use this technology.MethodsA systematic literature review was performed using PubMed and Google Scholar. Articles searched for were in English, peer-reviewed with biomedical reference, published since 2005 in a journal or presented at a conference or scientific meeting. Ineligible articles were removed after screening. The found literature was categorized into articles that (1) applied 3D PDF for visualization, (2) showed ways to use 3D PDF, and (3) provided tools or protocols for the creation of 3D PDFs or necessary models. Finally, the latter category was analyzed in detail to provide an overview of the state of the art.ResultsThe search retrieved a total of 902 items. Screening identified 200 in-scope publications, 13 covering the use of 3D PDF for medical purposes. Only one article described a clinical routine use case; all others were pure research articles. The disciplines that were covered beside medicine were many. In most cases, either animal or human anatomies were visualized. A method, protocol, software, library, or other tool for the creation of 3D PDFs or model files was described in 19 articles. Most of these tools required advanced programming skills and/or the installation of further software packages. Only one software application presented an all-in-one solution with a graphical user interface.ConclusionsThe use of 3D PDF for visualization purposes in clinical communication and in biomedical publications is still not in common use, although both the necessary technique and suitable tools are available, and there are many arguments in favor of this technique. The potential of 3D PDF usage should be disseminated in the clinical and biomedical community. Furthermore, easy-to-use, standalone, and free-of-charge software tools for the creation of 3D PDFs should be developed.

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A Systematic Review of the Three-Dimensional Portable Document Format (3D PDF) in Clinical Communication and Biomedical Sciences: Applications, Tools, and Protocols (Preprint)

Newe¹,

Becker²

2018

Preprint

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BACKGROUND The Portable Document Format (PDF) is the standard file format for the communication of biomedical information via the Internet and for electronic scholarly publishing. Although PDF allows for the embedding of three-dimensional (3D) objects and although this technology has great potential for the communication of such data, it is not broadly used by the scientific community or by clinicians. OBJECTIVE The objective of this review was to provide an overview of existing publications that apply 3D PDF technology and the protocols and tools for the creation of model files and 3D PDFs for scholarly purposes to demonstrate the possibilities and the ways to use this technology. METHODS A systematic literature review was performed using PubMed and Google Scholar. Articles searched for were in English, peer-reviewed with biomedical reference, published since 2005 in a journal or presented at a conference or scientific meeting. Ineligible articles were removed after screening. The found literature was categorized into articles that (1) applied 3D PDF for visualization, (2) showed ways to use 3D PDF, and (3) provided tools or protocols for the creation of 3D PDFs or necessary models. Finally, the latter category was analyzed in detail to provide an overview of the state of the art. RESULTS The search retrieved a total of 902 items. Screening identified 200 in-scope publications, 13 covering the use of 3D PDF for medical purposes. Only one article described a clinical routine use case; all others were pure research articles. The disciplines that were covered beside medicine were many. In most cases, either animal or human anatomies were visualized. A method, protocol, software, library, or other tool for the creation of 3D PDFs or model files was described in 19 articles. Most of these tools required advanced programming skills and/or the installation of further software packages. Only one software application presented an all-in-one solution with a graphical user interface. CONCLUSIONS The use of 3D PDF for visualization purposes in clinical communication and in biomedical publications is still not in common use, although both the necessary technique and suitable tools are available, and there are many arguments in favor of this technique. The potential of 3D PDF usage should be disseminated in the clinical and biomedical community. Furthermore, easy-to-use, standalone, and free-of-charge software tools for the creation of 3D PDFs should be developed.

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Software for browsing sectioned images of a dog body and generating a 3D model

Cited by 6 publications

References 19 publications

Advanced Sectioned Images of a Cadaver Head with Voxel Size of 0.04 mm

Advanced Sectioned Images of a Cadaver Head with Voxel Size of 0.04 mm

Three-Dimensional Portable Document Format (3D PDF) in Clinical Communication and Biomedical Sciences: Systematic Review of Applications, Tools, and Protocols

A Systematic Review of the Three-Dimensional Portable Document Format (3D PDF) in Clinical Communication and Biomedical Sciences: Applications, Tools, and Protocols (Preprint)

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