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GeneAround: A Browsing System for Gene Annotation Using XML Technologies

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Advances in Web-Age Information Management (WAIM 2002)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 2419))

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Abstract

Integration of diverse database has become more and more important in genomic research. Comparing genes over different species in a unified way is one of the demands. GeneAround is a browsing system for gene annotations of various model organisms. The annotations are described based on the Gene Ontology™(GO), which is an emerging de facto standard vocabulary for functional annotation on gene products. GeneAround stores association data of genes and the GO terms in Extensible Markup Language (XML). An XQuery engine enables a search in the system, and the retrieved data in XML is converted into HTML format to be viewed by users. Moreover, a graphical browser for GO is incorporated to facilitate acquisition of relevant gene entries. The GO browser functions as a graphical user interface to search the entries that are associated to GO terms.

GeneAround is publicly available at http://db.aist-nara.ac.jp/genearound/.

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Author information

Authors and Affiliations

  1. Graduate School of Information Science, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0101, Japan

    Junko Tanoue, Noboru Matoba, Masatoshi Yoshikawa & Shunsuke Uemura

Authors
  1. Junko Tanoue
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  2. Noboru Matoba
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  3. Masatoshi Yoshikawa
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  4. Shunsuke Uemura
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Editor information

Editors and Affiliations

  1. Information School, Renmin University of China, Beijing, 100872, China

    Xiaofeng Meng

  2. Department of Computer Science, University of California, Santa Barbara, CA, 93106-5110, USA

    Jianwen Su  & Yujun Wang  & 

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© 2002 Springer-Verlag Berlin Heidelberg

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Tanoue, J., Matoba, N., Yoshikawa, M., Uemura, S. (2002). GeneAround: A Browsing System for Gene Annotation Using XML Technologies. In: Meng, X., Su, J., Wang, Y. (eds) Advances in Web-Age Information Management. WAIM 2002. Lecture Notes in Computer Science, vol 2419. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-45703-8_22

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  • DOI: https://doi.org/10.1007/3-540-45703-8_22

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-44045-1

  • Online ISBN: 978-3-540-45703-9

  • eBook Packages: Springer Book Archive

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