Statistical Indices for Simultaneous Large-Scale Metabolite Detections for a Single NMR Spectrum

被引：106

作者：

Chikayama, Eisuke ^{[1
]}

Sekiyama, Yasuyo ^{[1
]}

Okamoto, Mami ^{[2
]}

Nakanishi, Yumiko ^{[2
]}

Tsuboi, Yuuri ^{[3
]}

Akiyama, Kenji ^{[1
]}

Saito, Kazuki ^{[1
,4
]}

Shinozaki, Kazuo ^{[1
]}

Kikuchi, Jun ^{[1
,2
,5
]}

机构：

[1] RIKEN, Plant Sci Ctr, Metabolome Res Grp, Tsurumi Ku, Kanagawa 2300045, Japan

[2] Yokohama City Univ, Grad Sch Nanobiosci, Tsurumi Ku, Kanagawa 2300045, Japan

[3] RIKEN, Adv Sci Inst, Wako, Saitama 3510198, Japan

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

[5] Nagoya Univ, Grad Sch Bioagr Sci, Chikusa Ku, Nagoya, Aichi 4640810, Japan

来源：

ANALYTICAL CHEMISTRY | 2010年 / 82卷 / 05期

基金：

日本科学技术振兴机构;

关键词：

TOTAL CORRELATION SPECTROSCOPY; ARABIDOPSIS-THALIANA; METABOLOMICS; IDENTIFICATION; MIXTURES; PLANT; METABONOMICS; GENOMICS; REVEALS; SYSTEM;

D O I：

10.1021/ac9022023

中图分类号：

O65 [分析化学];

学科分类号：

070302 ; 081704 ;

摘要：

NMR-based metabolomics has become a practical and analytical methodology for discovering novel genes, biomarkers, metabolic phenotypes, and dynamic cell behaviors in organisms. Recent developments in NMR-based metabolomics, however, have not concentrated on improvements of comprehensiveness in terms of simultaneous large-scale metabolite detections. To resolve this, we have devised and implemented a statistical index, the SpinAssign p-value, in NMR-based metabolomics for large-scale metabolite annotation and publicized this information. It enables simultaneous annotation of more than 200 candidate metabolites from the single C-13-HSQC (heteronuclear single quantum coherence) NMR spectrum of a single sample of cell extract.

引用

页码：1653 / 1658

页数：6

共 55 条

[1]

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

[2] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[3]

AXELOS M, 1992, PLANT PHYSIOL BIOCH, V30, P123

[4] Metabotyping of Caenorhabditis elegans reveals latent phenotypes [J].

Blaise, Benjamin J. ;

Giacomotto, Jean ;

Elena, Benedicte ;

Dumas, Marc-Emmanuel ;

Toullhoat, Pierre ;

Segalat, Laurent ;

Emsley, Lyndon .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2007, 104 (50) :19808-19812

[5] 'Systems toxicology' approach identifies coordinated metabolic responses to copper in a terrestrial non-model invertebrate, the earthworm Lumbricus rubellus [J].

Bundy, Jacob G. ;

Sidhu, Jasmin K. ;

Rana, Faisal ;

Spurgeon, David J. ;

Svendsen, Claus ;

Wren, Jodie F. ;

Sturzenbaum, Stephen R. ;

Morgan, A. John ;

Kille, Peter .

BMC BIOLOGY, 2008, 6 (1)

[6] Comparative genomics of the neglected human malaria parasite Plasmodium vivax [J].

Carlton, Jane M. ;

Adams, John H. ;

Silva, Joana C. ;

Bidwell, Shelby L. ;

Lorenzi, Hernan ;

Caler, Elisabet ;

Crabtree, Jonathan ;

Angiuoli, Samuel V. ;

Merino, Emilio F. ;

Amedeo, Paolo ;

Cheng, Qin ;

Coulson, Richard M. R. ;

Crabb, Brendan S. ;

del Portillo, Hernando A. ;

Essien, Kobby ;

Feldblyum, Tamara V. ;

Fernandez-Becerra, Carmen ;

Gilson, Paul R. ;

Gueye, Amy H. ;

Guo, Xiang ;

Kang'a, Simon ;

Kooij, Taco W. A. ;

Korsinczky, Michael ;

Meyer, Esmeralda V. -S. ;

Nene, Vish ;

Paulsen, Ian ;

White, Owen ;

Ralph, Stuart A. ;

Ren, Qinghu ;

Sargeant, Tobias J. ;

Salzberg, Steven L. ;

Stoeckert, Christian J. ;

Sullivan, Steven A. ;

Yamamoto, Marcio M. ;

Hoffman, Stephen L. ;

Wortman, Jennifer R. ;

Gardner, Malcolm J. ;

Galinski, Mary R. ;

Barnwell, John W. ;

Fraser-Liggett, Claire M. .

NATURE, 2008, 455 (7214) :757-763

[7] Systematic NMR Analysis of Stable Isotope Labeled Metabolite Mixtures in Plant and Animal Systems: Coarse Grained Views of Metabolic Pathways [J].

Chikayama, Eisuke ;

Suto, Michitaka ;

Nishihara, Takashi ;

Shinozaki, Kazuo ;

Hirayama, Takashi ;

Kikuchi, Jun .

PLOS ONE, 2008, 3 (11)

[8] Pharmaco-metabonomic phenotyping and personalized drug treatment [J].

Clayton, TA ;

Lindon, JC ;

Cloarec, O ;

Antti, H ;

Charuel, C ;

Hanton, G ;

Provost, JP ;

Le Net, JL ;

Baker, D ;

Walley, RJ ;

Everett, JR ;

Nicholson, JK .

NATURE, 2006, 440 (7087) :1073-1077

[9] Statistical total correlation spectroscopy:: An exploratory approach for latent biomarker identification from metabolic 1H NMR data sets [J].

Cloarec, O ;

Dumas, ME ;

Craig, A ;

Barton, RH ;

Trygg, J ;

Hudson, J ;

Blancher, C ;

Gauguier, D ;

Lindon, JC ;

Holmes, E ;

Nicholson, J .

ANALYTICAL CHEMISTRY, 2005, 77 (05) :1282-1289

[10] 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

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