Visualization of metabolite identifier information

被引：3

作者：

Matsuda, Fumio ^{[1
]}

Redestig, Henning ^{[1
]}

Sawada, Yuji ^{[1
]}

Shinbo, Yoko ^{[2
]}

Hirai, Masami Yokota ^{[1
,3
]}

Kanaya, Shigehiko ^{[1
,2
]}

Saito, Kazuki ^{[1
,4
]}

机构：

[1] RIKEN Plant Sci Ctr, Kanagawa 2300045, Japan

[2] Nara Inst Sci & Technol, Grad Sch Informat Sci, Nara 6300101, Japan

[3] Japan Sci & Technol Agcy, CREST, Kawaguchi, Saitama 3320012, Japan

[4] Chiba Univ, Grad Sch Pharmaceut Sci, Chiba 2638522, Japan

来源：

PLANT BIOTECHNOLOGY | 2009年 / 26卷 / 05期

关键词：

Graph theory; metabolite identifier; plant metabolomics; INTERACTION NETWORKS; METABOLOMICS; ENVIRONMENT; ALGORITHM; DATABASE;

D O I：

10.5511/plantbiotechnology.26.479

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

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.

引用

页码：479 / 483

页数：5

共 12 条

[1]

Akiyama Kenji, 2008, In Silico Biology, V8, P339

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