Visualization of metabolite identifier information

• Matsuda Fumio

  RIKEN Plant Science Center

• Redestig Henning

  RIKEN Plant Science Center

• Sawada Yuji

  RIKEN Plant Science Center

• Shinbo Yoko

  Graduate School of Information Science, Nara Institute of Science and Technology

• Hirai Masami Yokota

  RIKEN Plant Science Center Japan Science and Technology Agency (JST), CREST

• Kanaya Shigehiko

  RIKEN Plant Science Center Graduate School of Information Science, Nara Institute of Science and Technology

• Saito Kazuki

  RIKEN Plant Science Center Graduate School of Pharmaceutical Sciences, Chiba University

Bibliographic Information

Other Title

• Bioinformatics note: Visualization of metabolite identifier information

Abstract

In this study, we used a graphical representation to integrate, visualize, search, and analyze information on metabolite identifiers. By considering the links between metabolite identifiers described in the metabolite databases to be the edges between vertices in a graph, several metabolite databases can be integrated into a database without defining a new metabolite identifier code. The graphical visualization of metabolite identifier network enables us to understand the meaning of each metabolite identifier and their relationship with associated identifiers. The projection of actual metabolome data on the pathway map was also attained by using the converter function of the metabolite identifier database. We demonstrated that other metabolite-related information, such as chemical ontology and species-metabolite relationship, can be incorporated into the network, and performed an analysis of plant species-alkaloid ontology relationship.

Journal

• Plant Biotechnology

  Plant Biotechnology 26 (5), 479-483, 2009

  Japanese Society for Plant Biotechnology

Keywords

• Graph theory
• metabolite identifier
• plant metabolomics

Details

• CRID: 1390282679305858688
• NII Article ID: 10026136435
• NII Book ID: AA11250821
• DOI: 10.5511/plantbiotechnology.26.479
• COI: 1:CAS:528:DC%2BC3cXisFKhtLs%3D
• ISSN: 13476114
• ISSN: 13424580
• NDL BIB ID: 10496746
• Web Site: https://ndlsearch.ndl.go.jp/books/R000000004-I10496746
• Text Lang: en
• Data Source:
  • JaLC
  • NDL
  • Crossref
  • CiNii Articles
• Abstract License Flag: Disallowed