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Bioinformatics Advance Access originally published online on November 25, 2004
Bioinformatics 2005 21(8):1717-1718; doi:10.1093/bioinformatics/bti152
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© The Author 2004. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

The carbohydrate sequence markup language (CabosML): an XML description of carbohydrate structures

Norihiro Kikuchi 1,*, Akihiko Kameyama 2, Shuuichi Nakaya 2,3, Hiromi Ito 2, Takashi Sato 2, Toshihide Shikanai 1,2, Yoriko Takahashi 1 and Hisashi Narimatsu 2

1Mitsui Knowledge Industry Co., Ltd. Nakano-ku, Tokyo, Japan
2Glycogene Function Team, Research Center for Glycoscience, National Institute of Advanced Industrial Science and Technology (AIST) Tsukuba, Ibaraki, Japan
3Shimadzu Corporation Nakagyo-ku, Kyoto, Japan

*To whom correspondence should be addressed.

Summary: Bioinformatics resources for glycomics are very poor as compared with those for genomics and proteomics. The complexity of carbohydrate sequences makes it difficult to define a common language to represent them, and the development of bioinformatics tools for glycomics has not progressed. In this study, we developed a carbohydrate sequence markup language (CabosML), an XML description of carbohydrate structures.

Availability: The language definition (XML Schema) and an experimental database of carbohydrate structures using an XML database management system are available at http://www.phoenix.hydra.mki.co.jp/CabosDemo.html

Contact: kikuchi{at}hydra.mki.co.jp


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