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Nucleic Acids Research Advance Access originally published online on October 3, 2008
Nucleic Acids Research 2009 37(Database issue):D782-D785; doi:10.1093/nar/gkn613
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Nucleic Acids Research, 2009, Vol. 37, Database issue D782-D785
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

BodyParts3D: 3D structure database for anatomical concepts

Nobutaka Mitsuhashi1, Kaori Fujieda1, Takuro Tamura2, Shoko Kawamoto1, Toshihisa Takagi1 and Kousaku Okubo1,3,*

1Database Center for Life Science, Research Organization of Information and Systems, Faculty of Engineering Bldg.12, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032, 2Bits Co., Ltd., 20-3-A402 Shimotogari, Shizuoka 411-0943 and 3Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka 411-8540, Japan

*To whom correspondence should be addressed. Tel: +81 55 981 5836; Fax: +81 55 981 5837; Email: kokubo{at}genes.nig.ac.jp

Received August 15, 2008. Revised September 8, 2008. Accepted September 9, 2008.

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/.


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