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Construction process of BodyParts3D
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Anatomography was launched on Feb. 9, 2009<ref name="LAUNCH">[http://lifesciencedb.jp/bp3d/info/userGuide/releaseNotes/index.html Release notes] (in Japanese). DBCLS. Retrieved 2012-10-12.</ref> by founder and chief director Kousaku Okubo ([[:ja:大久保公策|大久保 公策]]), professor of the [[DNA Data Bank of Japan]] at the [[National Institute of Genetics]].
Anatomography was launched on Feb. 9, 2009<ref name="LAUNCH">[http://lifesciencedb.jp/bp3d/info/userGuide/releaseNotes/index.html Release notes] (in Japanese). DBCLS. Retrieved 2012-10-12.</ref> by founder and chief director Kousaku Okubo ([[:ja:大久保公策|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'''".<ref name="PMID18835852">Nobutaka Mitsuhashi, Kaori Fujieda, Takuro Tamura, Shoko Kawamoto, Toshihisa Takagi and Kousaku Okubo "[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686534/?tool=pubmed BodyParts3D: 3D structure database for anatomical concepts]" ''Nucleic Acids Research'', 2009, '''Vol. 37''', Database issue D782-D785 {{PMID|18835852}} {{PMC|2686534}}{{Open access}}</ref> BodyParts3D polygon data is extracted from full-body [[MRI]] images. The MRI images which BodyParts3D is based on are "TARO".<ref>[[Taro (given name)|Taro]] is common given name for males Japanese, like [[John (given name)|John]] in English.</ref> "TARO" is 2mm * 2mm * 2mm [[voxel]] datasets of the human male created by the [[National Institute of Information and Communications Technology]].<ref>Nagaoka T, Watanabe S, Sakurai K, Kunieda E, Watanabe S, Taki M, Yamanaka Y. "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." ''Phys Med Biol''. 2004 Jan 7;49(1):1-15. {{PMID|14971769}}</ref> TARO and HANAKO were published freely on November, 2004.<ref>[http://www.itmedia.co.jp/news/articles/0411/10/news106.html 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.</ref><ref>[http://www2.nict.go.jp/pub/whatsnew/press/h16/041110-2/041110-2.html 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.</ref>
Human body polygon data used in the site is called "'''BodyParts3D'''".<ref name="PMID18835852">Nobutaka Mitsuhashi, Kaori Fujieda, Takuro Tamura, Shoko Kawamoto, Toshihisa Takagi and Kousaku Okubo "[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686534/?tool=pubmed BodyParts3D: 3D structure database for anatomical concepts]" ''Nucleic Acids Research'', 2009, '''Vol. 37''', Database issue D782-D785 {{PMID|18835852}} {{PMC|2686534}}{{Open access}}</ref> BodyParts3D polygon data is extracted from full-body [[MRI]] images. The MRI images which BodyParts3D is based on is "TARO".<ref>[[Taro (given name)|Taro]] is common given name for males in Japanese, like [[John (given name)|John]] in English.</ref> TARO is 2mm * 2mm * 2mm [[voxel]] datasets of the human male created by the [[National Institute of Information and Communications Technology]].<ref>Nagaoka T, Watanabe S, Sakurai K, Kunieda E, Watanabe S, Taki M, Yamanaka Y. "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." ''Phys Med Biol''. 2004 Jan 7;49(1):1-15. {{PMID|14971769}}</ref> TARO was published freely on November, 2004.<ref>[http://www.itmedia.co.jp/news/articles/0411/10/news106.html 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.</ref><ref>[http://www2.nict.go.jp/pub/whatsnew/press/h16/041110-2/041110-2.html 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.</ref>


Construction process of BodyParts3D is as follows.<ref name="PMID18835852"/>
⚫
BodyParts3D polygon data is distributed in [[STL (file format)|STL]] and [[VTK]] format. Full data size is 127MB(polygon reduced) or 521MB(high quality) in version 3.0.<ref>[http://dbarchive.biosciencedbc.jp/en/bodyparts3d/download.html Download - BodyParts3D] DBCLS. Retrieved 2012-10-15.</ref>
* 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 and mock-up models by medical illustrators.<ref name="RELEASE3.0">[ftp://ftp.biosciencedbc.jp/archive/bodyparts3d/LATEST/release_3.0_e.html BodyParts3D Release Note (Release 3.0, 2011/6/20)] DBCLS. Retrieved 2012-10-15.</ref>
* 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 [[STL (file format)|STL]] and [[VTK]] format. Full data size is 127MB(polygon reduced) or 521MB(high quality) in version 3.0.<ref>[http://dbarchive.biosciencedbc.jp/en/bodyparts3d/download.html Download - BodyParts3D] DBCLS. Retrieved 2012-10-15.</ref> The number of body parts (organs) registered in BodyParts3D is 1523 at version 3.0.<ref name="RELEASE3.0"/>


==Reception==
==Reception==
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File:BodyParts3D ver.2.0.jpg|Bones and muscles.
File:BodyParts3D ver.2.0.jpg|Bones and muscles.
File:Anatomography rib cage and heart.png|[[Heart]] and its [[blood vessel]]s.
File:Anatomography rib cage and heart.png|[[Heart]] and its [[blood vessel]]s.
File:Anatomography skull and eyeball.png|[[Skull]] and eyes.
File:Anatomography skull and eyeball.png|[[Skull]] and eyeballs.
File:Frontal lobe animation.gif|Animation of [[frontal lobe]].
File:Frontal lobe animation.gif|Brain and [[frontal lobe]].
File:BodyParts3D Blender.png|Downloaded BodyParts3D polygon data, edited with [[Blender]].
File:BodyParts3D Blender.png|Downloaded BodyParts3D polygon data, edited with [[Blender]].
File:Dr ohkubo.png|Chief director Kousaku Okubo at conference<ref>Conference "Balancing IP Protection and Data Sharing in Science" held at the University of Tokyo, 2009-10-05. [http://symposium.lifesciencedb.jp/IPDS/program "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.</ref>
File:Dr ohkubo.png|Chief director Kousaku Okubo at conference<ref>Conference "Balancing IP Protection and Data Sharing in Science" held at the University of Tokyo, 2009-10-05. [http://symposium.lifesciencedb.jp/IPDS/program "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.</ref>
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==See also==
==See also==
{{Commons category|Anatomography}}
{{Commons category|Anatomography}}
* [[Human anatomy]]
* [[Open science]]
* [[Open science]]
* [[Open data]]
* [[Open data]]
* [[Science Commons]]
* [[Science Commons]]
* [[Democratization of knowledge]]


==References==
==References==

Version vom 15. Oktober 2012, 03:30 Uhr

Vorlage:Orphan

Anatomography
http://lifesciencedb.jp/bp3d/?lng=en

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 in the site (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 images which BodyParts3D is based on is "TARO".[4] TARO is 2mm * 2mm * 2mm voxel datasets of the human male created by the National Institute of Information and Communications Technology.[5] TARO was published freely on November, 2004.[6][7]

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 and mock-up models by medical illustrators.[8]
  • 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 STL and VTK format. Full data size is 127MB(polygon reduced) or 521MB(high quality) in version 3.0.[9] The number of body parts (organs) registered in BodyParts3D is 1523 at version 3.0.[8]

Reception

Diagrams from Anatomography are used, for example, in Canadian science TV show Le code Chastenay[10], Internet encyclopedia Wikipedia, lecture materials at universities, Twitter, and so on.[11] 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."[11]

License

Anatomography is licensed under the Creative Commons license.[1] The reason for this is to widen usage and democratize medical knowledge.[11]

Others

Some tutorial videos on using Anatomography are available on YouTube.[12]

Additional images

See also

Vorlage:Commons category

References

Vorlage:Reflist

  1. ↑ a b Referenzfehler: Ungültiges <ref>-Tag; kein Text angegeben für Einzelnachweis mit dem Namen CREDIT.
  2. ↑ Release notes (in Japanese). DBCLS. Retrieved 2012-10-12.
  3. ↑ a b Nobutaka Mitsuhashi, Kaori Fujieda, Takuro Tamura, Shoko Kawamoto, Toshihisa Takagi and Kousaku Okubo "BodyParts3D: 3D structure database for anatomical concepts" Nucleic Acids Research, 2009, Vol. 37, Database issue D782-D785 Vorlage:PMID PMC 2686534 (freier Volltext)Vorlage:Open access
  4. ↑ Taro is common given name for males in Japanese, like John in English.
  5. ↑ Nagaoka T, Watanabe S, Sakurai K, Kunieda E, Watanabe S, Taki M, Yamanaka Y. "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." Phys Med Biol. 2004 Jan 7;49(1):1-15. Vorlage:PMID
  6. ↑ 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.
  7. ↑ 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.
  8. ↑ a b BodyParts3D Release Note (Release 3.0, 2011/6/20) DBCLS. Retrieved 2012-10-15.
  9. ↑ Download - BodyParts3D DBCLS. Retrieved 2012-10-15.
  10. ↑ 「LE CODE CHASTENAY」Emission 48, 2010-01-19 aired
  11. ↑ 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」Vorlage: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.
  12. ↑ Kawano S, Ono H, Takagi T, Bono H. "Tutorial videos of bioinformatics resources: online distribution trial in Japan named TogoTV." Brief Bioinform. 2012 Mar;13(2):258-68. Vorlage:PMID PMC 3294242 (freier Volltext)Vorlage:Open access
  13. ↑ 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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