What can metabolomics learn from genomics and proteomics?

被引:12
作者
Arita, Masanori [1 ,2 ,3 ]
机构
[1] Univ Tokyo, Dept Computat Biol, Grad Sch Frontier Sci, Tokyo 1138654, Japan
[2] RIKEN, Plant Sci Ctr, Metabolome Informat Unit, Wako, Saitama, Japan
[3] Keio Univ, Inst Adv Biosci, Tokyo 108, Japan
关键词
SCALE DATA SETS; ESCHERICHIA-COLI; LIFE SCIENCES; INFORMATION; WIKI; INFRASTRUCTURE; IDENTIFICATION; ANNOTATION; STANDARDS; EXCHANGE;
D O I
10.1016/j.copbio.2009.09.011
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
After nearly a decade, metabolomics has begun to acquire some credence in the scientific community although its acceptance cannot be compared with that of its forerunners, genomics and proteomics. The legitimization of metabolomics as a valid scientific entity depends on the size of the research community it influences. By far the most effective medium for inoculation is the web infrastructure: public servers that accommodate experimental data, simple formats and guidelines for their interpretation, and connectivity between data and tools for analysis. When these elements satisfy the condition to initiate a social epidemic, metabolomics will be accepted as a fundamental data-driven science that can unite hitherto independently conducted research disciplines.
引用
收藏
页码:610 / 615
页数:6
相关论文
共 53 条
[1]   The metabolic world of Escherichia coli is not small [J].
Arita, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (06) :1543-1547
[2]   Search extension transforms Wiki into a relational system: A case for flavonoid metabolite database [J].
Arita, Masanori ;
Suwa, Kazuhiro .
BIODATA MINING, 2008, 1 (1)
[3]   Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants:: the Keio collection [J].
Baba, Tomoya ;
Ara, Takeshi ;
Hasegawa, Miki ;
Takai, Yuki ;
Okumura, Yoshiko ;
Baba, Miki ;
Datsenko, Kirill A. ;
Tomita, Masaru ;
Wanner, Barry L. ;
Mori, Hirotada .
MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1) :2006.0008
[4]   Web-Queryable Large-Scale Data Sets for Hypothesis Generation in Plant Biology [J].
Brady, Siobhan M. ;
Provart, Nicholas J. .
PLANT CELL, 2009, 21 (04) :1034-1051
[5]   Minimum information about a microarray experiment (MIAME) - toward standards for microarray data [J].
Brazma, A ;
Hingamp, P ;
Quackenbush, J ;
Sherlock, G ;
Spellman, P ;
Stoeckert, C ;
Aach, J ;
Ansorge, W ;
Ball, CA ;
Causton, HC ;
Gaasterland, T ;
Glenisson, P ;
Holstege, FCP ;
Kim, IF ;
Markowitz, V ;
Matese, JC ;
Parkinson, H ;
Robinson, A ;
Sarkans, U ;
Schulze-Kremer, S ;
Stewart, J ;
Taylor, R ;
Vilo, J ;
Vingron, M .
NATURE GENETICS, 2001, 29 (04) :365-371
[6]   Mascot-Derived False Positive Peptide Identifications Revealed by Manual Analysis of Tandem Mass Spectra [J].
Chen, Yue ;
Zhang, Junmei ;
Xing, Gang ;
Zhao, Yingming .
JOURNAL OF PROTEOME RESEARCH, 2009, 8 (06) :3141-3147
[7]   NMR-based metabolic profiling and metabonomic approaches to problems in molecular toxicology [J].
Coen, Muireann ;
Holmes, Elaine ;
Lindon, John C. ;
Nicholson, Jeremy K. .
CHEMICAL RESEARCH IN TOXICOLOGY, 2008, 21 (01) :9-27
[8]   Metabolite identification via the Madison Metabolomics Consortium Database [J].
Cui, Qiu ;
Lewis, Ian A. ;
Hegeman, Adrian D. ;
Anderson, Mark E. ;
Li, Jing ;
Schulte, Christopher F. ;
Westler, William M. ;
Eghbalnia, Hamid R. ;
Sussman, Michael R. ;
Markley, John L. .
NATURE BIOTECHNOLOGY, 2008, 26 (02) :162-164
[9]   Mass spectrometry-based metabolomics [J].
Dettmer, Katja ;
Aronov, Pavel A. ;
Hammock, Bruce D. .
MASS SPECTROMETRY REVIEWS, 2007, 26 (01) :51-78
[10]   Metabolic fingerprinting as a diagnostic tool [J].
Ellis, David I. ;
Dunn, Warwick B. ;
Griffin, Julian L. ;
Allwood, J. William ;
Goodacre, Royston .
PHARMACOGENOMICS, 2007, 8 (09) :1243-1266