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Volumn 11, Issue , 2010, Pages

The MetabolomeExpress Project: Enabling web-based processing, analysis and transparent dissemination of GC/MS metabolomics datasets

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL APPROACH; CORRELATION ANALYSIS; FILE TRANSFER PROTOCOL SERVERS; HIERARCHICAL CLUSTER ANALYSIS; PRINCIPAL COMPONENTS ANALYSIS; PUBLIC REPOSITORIES; RESPONSE STATISTICS; USER-FRIENDLY TOOL;

EID: 77955396600     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-11-376     Document Type: Article
Times cited : (104)

References (28)
  • 1
    • 34347405493 scopus 로고    scopus 로고
    • Data processing for mass spectrometry-based metabolomics
    • 10.1016/j.chroma.2007.04.021, 17466315
    • Katajamaa M, Oresic M. Data processing for mass spectrometry-based metabolomics. J Chromatogr A 2007, 1158(1-2):318-328. 10.1016/j.chroma.2007.04.021, 17466315.
    • (2007) J Chromatogr A , vol.1158 , Issue.1-2 , pp. 318-328
    • Katajamaa, M.1    Oresic, M.2
  • 2
    • 0032991929 scopus 로고    scopus 로고
    • Deconvolution gas chromatography/mass spectrometry of urinary organic acids - potential for pattern recognition and automated identification of metabolic disorders
    • 10.1002/(SICI)1097-0231(19990228)13:4<279::AID-RCM478>3.0.CO;2-I, 10097403
    • Halket JM, Przyborowska A, Stein SE, Mallard G, Down S, Chalmers RA. Deconvolution gas chromatography/mass spectrometry of urinary organic acids - potential for pattern recognition and automated identification of metabolic disorders. Rapid Communications in Mass Spectrometry 1999, 13(4):279-284. 10.1002/(SICI)1097-0231(19990228)13:4<279::AID-RCM478>3.0.CO;2-I, 10097403.
    • (1999) Rapid Communications in Mass Spectrometry , vol.13 , Issue.4 , pp. 279-284
    • Halket, J.M.1    Przyborowska, A.2    Stein, S.E.3    Mallard, G.4    Down, S.5    Chalmers, R.A.6
  • 3
    • 50049096775 scopus 로고    scopus 로고
    • XCMS2: processing tandem mass spectrometry data for metabolite identification and structural characterization
    • 10.1021/ac800795f, 2728033, 18627180
    • Benton HP, Wong DM, Trauger SA, Siuzdak G. XCMS2: processing tandem mass spectrometry data for metabolite identification and structural characterization. Anal Chem 2008, 80(16):6382-6389. 10.1021/ac800795f, 2728033, 18627180.
    • (2008) Anal Chem , vol.80 , Issue.16 , pp. 6382-6389
    • Benton, H.P.1    Wong, D.M.2    Trauger, S.A.3    Siuzdak, G.4
  • 4
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification
    • 10.1021/ac051437y, 16448051
    • Smith CA, Want EJ, O'Maille G, Abagyan R, Siuzdak G. XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. Anal Chem 2006, 78(3):779-787. 10.1021/ac051437y, 16448051.
    • (2006) Anal Chem , vol.78 , Issue.3 , pp. 779-787
    • Smith, C.A.1    Want, E.J.2    O'Maille, G.3    Abagyan, R.4    Siuzdak, G.5
  • 5
    • 33751373090 scopus 로고    scopus 로고
    • MetaQuant: a tool for the automatic quantification of GC/MS-based metabolome data
    • 10.1093/bioinformatics/btl526, 17046977
    • Bunk B, Kucklick M, Jonas R, Munch R, Schobert M, Jahn D, Hiller K. MetaQuant: a tool for the automatic quantification of GC/MS-based metabolome data. Bioinformatics 2006, 22(23):2962-2965. 10.1093/bioinformatics/btl526, 17046977.
    • (2006) Bioinformatics , vol.22 , Issue.23 , pp. 2962-2965
    • Bunk, B.1    Kucklick, M.2    Jonas, R.3    Munch, R.4    Schobert, M.5    Jahn, D.6    Hiller, K.7
  • 6
    • 65249132985 scopus 로고    scopus 로고
    • MetAlign: interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing
    • 10.1021/ac900036d, 19301908
    • Lommen A. MetAlign: interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing. Anal Chem 2009, 81(8):3079-3086. 10.1021/ac900036d, 19301908.
    • (2009) Anal Chem , vol.81 , Issue.8 , pp. 3079-3086
    • Lommen, A.1
  • 7
    • 66149088821 scopus 로고    scopus 로고
    • MetaboliteDetector: comprehensive analysis tool for targeted and nontargeted GC/MS based metabolome analysis
    • 10.1021/ac802689c, 19358599
    • Hiller K, Hangebrauk J, Jager C, Spura J, Schreiber K, Schomburg D. MetaboliteDetector: comprehensive analysis tool for targeted and nontargeted GC/MS based metabolome analysis. Anal Chem 2009, 81(9):3429-3439. 10.1021/ac802689c, 19358599.
    • (2009) Anal Chem , vol.81 , Issue.9 , pp. 3429-3439
    • Hiller, K.1    Hangebrauk, J.2    Jager, C.3    Spura, J.4    Schreiber, K.5    Schomburg, D.6
  • 8
    • 0142033903 scopus 로고    scopus 로고
    • Metabolomics spectral formatting, alignment and conversion tools (MSFACTs)
    • 10.1093/bioinformatics/btg315, 14630657
    • Duran AL, Yang J, Wang L, Sumner LW. Metabolomics spectral formatting, alignment and conversion tools (MSFACTs). Bioinformatics 2003, 19(17):2283-2293. 10.1093/bioinformatics/btg315, 14630657.
    • (2003) Bioinformatics , vol.19 , Issue.17 , pp. 2283-2293
    • Duran, A.L.1    Yang, J.2    Wang, L.3    Sumner, L.W.4
  • 9
    • 33745728711 scopus 로고    scopus 로고
    • MET-IDEA: data extraction tool for mass spectrometry-based metabolomics
    • 10.1021/ac0521596, 16808440
    • Broeckling CD, Reddy IR, Duran AL, Zhao X, Sumner LW. MET-IDEA: data extraction tool for mass spectrometry-based metabolomics. Anal Chem 2006, 78(13):4334-4341. 10.1021/ac0521596, 16808440.
    • (2006) Anal Chem , vol.78 , Issue.13 , pp. 4334-4341
    • Broeckling, C.D.1    Reddy, I.R.2    Duran, A.L.3    Zhao, X.4    Sumner, L.W.5
  • 10
    • 40049092920 scopus 로고    scopus 로고
    • TagFinder for the quantitative analysis of gas chromatography--mass spectrometry (GC-MS)-based metabolite profiling experiments
    • 10.1093/bioinformatics/btn023, 18204057
    • Luedemann A, Strassburg K, Erban A, Kopka J. TagFinder for the quantitative analysis of gas chromatography--mass spectrometry (GC-MS)-based metabolite profiling experiments. Bioinformatics 2008, 24(5):732-737. 10.1093/bioinformatics/btn023, 18204057.
    • (2008) Bioinformatics , vol.24 , Issue.5 , pp. 732-737
    • Luedemann, A.1    Strassburg, K.2    Erban, A.3    Kopka, J.4
  • 11
    • 60849118098 scopus 로고    scopus 로고
    • MetaFIND: a feature analysis tool for metabolomics data
    • 10.1186/1471-2105-9-470, 2655093, 18986526
    • Bryan K, Brennan L, Cunningham P. MetaFIND: a feature analysis tool for metabolomics data. BMC Bioinformatics 2008, 9:470. 10.1186/1471-2105-9-470, 2655093, 18986526.
    • (2008) BMC Bioinformatics , vol.9 , pp. 470
    • Bryan, K.1    Brennan, L.2    Cunningham, P.3
  • 12
    • 62149124281 scopus 로고    scopus 로고
    • TICL--a web tool for network-based interpretation of compound lists inferred by high-throughput metabolomics
    • 10.1111/j.1742-4658.2009.06943.x, 19292876
    • Antonov AV, Dietmann S, Wong P, Mewes HW. TICL--a web tool for network-based interpretation of compound lists inferred by high-throughput metabolomics. FEBS J 2009, 276(7):2084-2094. 10.1111/j.1742-4658.2009.06943.x, 19292876.
    • (2009) FEBS J , vol.276 , Issue.7 , pp. 2084-2094
    • Antonov, A.V.1    Dietmann, S.2    Wong, P.3    Mewes, H.W.4
  • 13
    • 67849106535 scopus 로고    scopus 로고
    • MetaboAnalyst: a web server for metabolomic data analysis and interpretation
    • Web Server, 10.1093/nar/gkp356, 2703878, 19429898
    • Xia J, Psychogios N, Young N, Wishart DS. MetaboAnalyst: a web server for metabolomic data analysis and interpretation. Nucleic Acids Res 2009, (37 Web Server):w652-660. 10.1093/nar/gkp356, 2703878, 19429898.
    • (2009) Nucleic Acids Res , Issue.37
    • Xia, J.1    Psychogios, N.2    Young, N.3    Wishart, D.S.4
  • 15
    • 36348979386 scopus 로고    scopus 로고
    • SetupX--a public study design database for metabolomic projects
    • full_text, 17990490
    • Scholz M, Fiehn O. SetupX--a public study design database for metabolomic projects. Pac Symp Biocomput 2007, 169-180. full_text, 17990490.
    • (2007) Pac Symp Biocomput , pp. 169-180
    • Scholz, M.1    Fiehn, O.2
  • 19
    • 48549104104 scopus 로고    scopus 로고
    • The absence of ALTERNATIVE OXIDASE1a in Arabidopsis results in acute sensitivity to combined light and drought stress
    • 10.1104/pp.107.115121, 2409015, 18424626
    • Giraud E, Ho LH, Clifton R, Carroll A, Estavillo G, Tan YF, Howell KA, Ivanova A, Pogson BJ, Millar AH, Whelan J. The absence of ALTERNATIVE OXIDASE1a in Arabidopsis results in acute sensitivity to combined light and drought stress. Plant Physiol 2008, 147(2):595-610. 10.1104/pp.107.115121, 2409015, 18424626.
    • (2008) Plant Physiol , vol.147 , Issue.2 , pp. 595-610
    • Giraud, E.1    Ho, L.H.2    Clifton, R.3    Carroll, A.4    Estavillo, G.5    Tan, Y.F.6    Howell, K.A.7    Ivanova, A.8    Pogson, B.J.9    Millar, A.H.10    Whelan, J.11
  • 20
    • 60249086736 scopus 로고    scopus 로고
    • Mapping metabolic and transcript temporal switches during germination in rice highlights specific transcription factors and the role of RNA instability in the germination process
    • 10.1104/pp.108.129874, 2633829, 19074628
    • Howell KA, Narsai R, Carroll A, Ivanova A, Lohse M, Usadel B, Millar AH, Whelan J. Mapping metabolic and transcript temporal switches during germination in rice highlights specific transcription factors and the role of RNA instability in the germination process. Plant Physiol 2009, 149(2):961-980. 10.1104/pp.108.129874, 2633829, 19074628.
    • (2009) Plant Physiol , vol.149 , Issue.2 , pp. 961-980
    • Howell, K.A.1    Narsai, R.2    Carroll, A.3    Ivanova, A.4    Lohse, M.5    Usadel, B.6    Millar, A.H.7    Whelan, J.8
  • 22
    • 70349651781 scopus 로고    scopus 로고
    • Remodeled respiration in ndufs4 with low phosphorylation efficiency suppresses Arabidopsis germination and growth and alters control of metabolism at night
    • 10.1104/pp.109.141770, 2754622, 19675153
    • Meyer EH, Tomaz T, Carroll AJ, Estavillo G, Delannoy E, Tanz SK, Small ID, Pogson BJ, Millar AH. Remodeled respiration in ndufs4 with low phosphorylation efficiency suppresses Arabidopsis germination and growth and alters control of metabolism at night. Plant Physiol 2009, 151(2):603-619. 10.1104/pp.109.141770, 2754622, 19675153.
    • (2009) Plant Physiol , vol.151 , Issue.2 , pp. 603-619
    • Meyer, E.H.1    Tomaz, T.2    Carroll, A.J.3    Estavillo, G.4    Delannoy, E.5    Tanz, S.K.6    Small, I.D.7    Pogson, B.J.8    Millar, A.H.9
  • 23
    • 70349215643 scopus 로고    scopus 로고
    • Defining core metabolic and transcriptomic responses to oxygen availability in rice embryos and young seedlings
    • 10.1104/pp.109.142026, 2736006, 19571305
    • Narsai R, Howell KA, Carroll A, Ivanova A, Millar AH, Whelan J. Defining core metabolic and transcriptomic responses to oxygen availability in rice embryos and young seedlings. Plant Physiol 2009, 151(1):306-322. 10.1104/pp.109.142026, 2736006, 19571305.
    • (2009) Plant Physiol , vol.151 , Issue.1 , pp. 306-322
    • Narsai, R.1    Howell, K.A.2    Carroll, A.3    Ivanova, A.4    Millar, A.H.5    Whelan, J.6
  • 24
    • 63349110495 scopus 로고    scopus 로고
    • The Arabidopsis glutathione transferase gene family displays complex stress regulation and co-silencing multiple genes results in altered metabolic sensitivity to oxidative stress
    • Sappl PG, Carroll AJ, Clifton R, Lister R, Whelan J, Harvey Millar A, Singh KB. The Arabidopsis glutathione transferase gene family displays complex stress regulation and co-silencing multiple genes results in altered metabolic sensitivity to oxidative stress. Plant J 2009,
    • (2009) Plant J
    • Sappl, P.G.1    Carroll, A.J.2    Clifton, R.3    Lister, R.4    Whelan, J.5    Harvey Millar, A.6    Singh, K.B.7
  • 26
    • 38949104774 scopus 로고    scopus 로고
    • Quality control for plant metabolomics: reporting MSI-compliant studies
    • 10.1111/j.1365-313X.2007.03387.x, 18269577
    • Fiehn O, Wohlgemuth G, Scholz M, Kind T, Lee do Y, Lu Y, Moon S, Nikolau B. Quality control for plant metabolomics: reporting MSI-compliant studies. Plant J 2008, 53(4):691-704. 10.1111/j.1365-313X.2007.03387.x, 18269577.
    • (2008) Plant J , vol.53 , Issue.4 , pp. 691-704
    • Fiehn, O.1    Wohlgemuth, G.2    Scholz, M.3    Kind, T.4    Lee do, Y.5    Lu, Y.6    Moon, S.7    Nikolau, B.8


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