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==Technical features==
==Technical features==
BodyParts3D/Anatomography project uses [[Foundational Model of Anatomy]] (FMA). FMA is an open source [[anatomical ontology]] developed and maintained by the Structural Informatics Group at the [[University of Washington]]. In BodyParts3D, each body-parts are managed by FMA identifier (FMAID) defined by FMA.
BodyParts3D/Anatomography project uses [[Foundational Model of Anatomy]] (FMA). FMA is an open source [[anatomical ontology]] developed and maintained by the Structural Informatics Group at the [[University of Washington]]. In BodyParts3D, each body-parts are managed by FMA identifier (FMAID) defined by FMA. For exapmle, [[vertebral column]] is registered as ''[http://lifesciencedb.jp/bp3d/ag_annotation.cgi?i=FMA13478&lng=en&t=Conventional&position=rotate FMA13478]'', [[temporal lobe]] is registered as ''[http://lifesciencedb.jp/bp3d/ag_annotation.cgi?i=FMA61825&lng=en&t=Conventional&position=rotate FMA61825]'' and so on.


==Version history==
==Version history==

Revision as of 19:20, 9 November 2012

Anatomography
Anatomography logo.Anatomography screenshot
Available inEnglish or Japanese
OwnerDatabase Center for Life Science
Created byKousaku Okubo
URLlifesciencedb.jp/bp3d
CommercialNo
Content license

CC-BY-SA 2.1-ja[1]

Anatomography is an interactive website which supports generating anatomical diagrams and animations of the human body. The Anatomography website is maintained by the DBCLS (Database Center for Life Science) non-profit research institute located at the University of Tokyo. Anatomical diagrams generated by Anatomography, and 3D polygon data used on the website (called BodyParts3D), is freely available under the Creative Commons Attribution-ShareAlike license.[1]

Description

Anatomography was launched on Feb. 9, 2009[2] by founder and chief director Kousaku Okubo (大久保 公策), professor of the DNA Data Bank of Japan at the National Institute of Genetics.

Human body polygon data used in the site is called "BodyParts3D".[3] BodyParts3D polygon data is extracted from full-body MRI images. The MRI image set which BodyParts3D is based on is "TARO". Taro is common given name for males in Japanese, like John in English. TARO is a 2mm * 2mm * 2mm voxel dataset of the human male created by the National Institute of Information and Communications Technology.[4] TARO was published freely on November, 2004.[5][6]

Construction process of BodyParts3D is as follows.[3]

  • Phase 1: Additional anatomical segmentations were introduced in the original TARO data.
  • Phase 2: Then, missing details were supplemented and blurred contours were clarified using a 3D editing program by referring to textbooks, atlases,[7] and mock-up models by medical illustrators.
  • Phase 3: Further segmentation and data modification will continue in collaboration with clinical researchers until sufficient concept coverage is achieved.

BodyParts3D polygon data is distributed in OBJ format. The entire data file's size is 127 MB (polygon reduced) or 521 MB (high quality) in version 3.0.[8] The number of body parts (organs) registered in BodyParts3D is 1,523 as of version 3.0.[7]

License

Both images generated by Anatomography and polygon data BodyParts3D are licensed under the Creative Commons license.[1] The reason for this is to widen usage and democratize medical knowledge.[9]

Funding

The BodyParts3D/Anatomography project was funded by MEXT (Japanese Ministry of Education, Culture, Sports, Science and Technology) from FY2007 to FY2010.[10][11] As of FY2011, the project has been funded by the JST (Japan Science and Technology Agency).[11]

Reception

Diagrams from Anatomography are used, for example, in Canadian science TV show Le code Chastenay[12], Internet encyclopedia Wikipedia, lecture materials at universities, Twitter, and so on.[9] About usage of Anatomography on websites like Wikipedia and Wikimedia Commons, developers say "spreading of usages by anonymous users on like Wikipedia and Wikimedia Commons is what we had expected."[9]

Technical features

BodyParts3D/Anatomography project uses Foundational Model of Anatomy (FMA). FMA is an open source anatomical ontology developed and maintained by the Structural Informatics Group at the University of Washington. In BodyParts3D, each body-parts are managed by FMA identifier (FMAID) defined by FMA. For exapmle, vertebral column is registered as FMA13478, temporal lobe is registered as FMA61825 and so on.

Version history

  • Version 1.0 (Feb. 9, 2009) [2]
  • Version 2.0 (Apr. 28, 2010)[13] The number of body parts is 1,324.[14]
  • Version 3.0 (Jun. 20, 2011) The number of body parts is 1,523.[7]

Similar services

  • Zygote Body - Free web service provided by the Zygote Media Group located in American Fork, Utah, US. Zygote Body was launched as Google Body on December 15, 2010. The polygon data used on the website is a commercial product. As of October, 2012, the price of its full-body polygon data is $13,995.[15]
  • BioDigital Human - Commercial service provided by BioDigital Systems. BioDigital Human was published in 2011. BioDigital Systems is a university spin-off from New York University.[16]

Others

Some tutorial videos on using Anatomography are available on YouTube.[17] See External links section.

Additional images

See also

Wikimedia Commons has media related to Anatomography.

References

  1. ^ a b c FAQs - credit. (in Japanese) DBCLS. Retrieved 2012-10-12.
  2. ^ a b c Release notes (in Japanese). DBCLS. Retrieved 2012-10-12.
  3. ^ a b Mitsuhashi, N; Fujieda, K; Tamura, T; Kawamoto, S; Takagi, T; Okubo, K (2009). "BodyParts3D: 3D structure database for anatomical concepts". Nucleic acids research. 37 (Database issue): D782–5. doi:10.1093/nar/gkn613. PMC 2686534. PMID 18835852.Open access icon
  4. ^ Nagaoka, T; Watanabe, S; Sakurai, K; Kunieda, E; Watanabe, S; Taki, M; Yamanaka, Y (2004). "Development of realistic high-resolution whole-body voxel models of Japanese adult males and females of average height and weight, and application of models to radio-frequency electromagnetic-field dosimetry". Physics in medicine and biology. 49 (1): 1–15. PMID 14971769.
  5. ^ 日本人の数値人体モデルDB「TARO」と「HANAKO」公開 2004/11/10 (in Japanese). ITMedia. Retrieved 2012-10-12.
  6. ^ 報道発表:日本人平均成人男女の数値人体モデルデータベース公開のお知らせ 2004-11-10 (in Japanese). National Institute of Information and Communications Technology. Retrieved 2012-10-12.
  7. ^ a b c BodyParts3D Release Note (Release 3.0, 2011/6/20) DBCLS. Retrieved 2012-10-15.
  8. ^ Download - BodyParts3D DBCLS. Retrieved 2012-10-15.
  9. ^ a b c 三橋 信孝、藤枝 香、今井 紫緒、武藤 勇、田村 卓郎、川本 祥子、高木 利久、大久保 公策 「BodyParts3DとAnatomography: 医学での情報共有を「動機付ける」素材」Template:Ja icon シンポジウム「ライフサイエンスの未来へ～10年先のデータベースを考える～」/ Nobutaka Mitsuhashi, Kaori Fujieda, Shio Imai, Isamu Muto, Takuro Tamura, Shoko Kawamoto, Toshihisa Takagi and Kousaku Okubo "BodyParts3D and Anatomography: Materials motivating sharing information in medicine" Poster presentation at "Symposium: Toward the Future of Life Science - Thinking Databases of 10 Years Later" held in the University of Tokyo at 2010-10-05. Retrieved 2012-10-12.
  10. ^ BodyParts3D Database Description Life Science Database Archive. Retrieved 2012-10-19.
  11. ^ a b FAQ - About the Database Center for Life Science (DBCLS) DBCLS. Retrieved 2012-10-19.
  12. ^ 「LE CODE CHASTENAY」Emission 48, 2010-01-19 aired
  13. ^ "BodyParts3D/Anatomography" Updates Posted on April 28, 2010. DBCLS. Retrieved 2012-10-16.
  14. ^ BodyParts3D Release Note (Release 2.0, 2010/4/28) DBCLS. Retrieved 2012-10-15.
  15. ^ Male Anatomy Collection 5.0 3Dscience.com. (Zygote Media Group, Inc.). Retrieved 2012-10-19.
  16. ^ Success Stories: BioDigital Systems New York University. Retrieved 2012-10-19.
  17. ^ Kawano, S; Ono, H; Takagi, T; Bono, H (2012). "Tutorial videos of bioinformatics resources: Online distribution trial in Japan named TogoTV". Briefings in bioinformatics. 13 (2): 258–68. doi:10.1093/bib/bbr039. PMC 3294242. PMID 21803786.Open access icon
  18. ^ Conference "Balancing IP Protection and Data Sharing in Science" held at the University of Tokyo, 2009-10-05. "Conference program (partly Japanese, partly English)". Okubo's presentation is Japanese just before Lawrence Lessig's lecture. Entire video of each lectures are available by clicking links.
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