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Volumn 11, Issue , 2011, Pages

MeRy-B: A web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles

Author keywords

[No Author keywords available]

Indexed keywords

ANALYSIS OF VARIANCE; ARTICLE; CHEMISTRY; COMPUTER INTERFACE; DATA BASE; FACTUAL DATABASE; INTERNET; KNOWLEDGE BASE; METABOLOMICS; METHODOLOGY; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PLANT; PRINCIPAL COMPONENT ANALYSIS;

EID: 79958251200     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-11-104     Document Type: Article
Times cited : (51)

References (57)
  • 1
    • 0032168794 scopus 로고    scopus 로고
    • Systematic functional analysis of the yeast genome
    • 10.1016/S0167-7799(98)01214-1, 9744112
    • Oliver SG, Winson MK, Kell DB, Baganz F. Systematic functional analysis of the yeast genome. Trends Biotechnol 1998, 16:373-378. 10.1016/S0167-7799(98)01214-1, 9744112.
    • (1998) Trends Biotechnol , vol.16 , pp. 373-378
    • Oliver, S.G.1    Winson, M.K.2    Kell, D.B.3    Baganz, F.4
  • 6
    • 79960651032 scopus 로고    scopus 로고
    • Plant metabolomics and its potential for systems biology research: background concepts, technology and methodology
    • Elsevier Inc, Westerhoff H, Hayes N,
    • Allwood J, de Vos C, Moing A, Deborde C, Erban A, Kopka J, Goodacre R, Hall R. Plant metabolomics and its potential for systems biology research: background concepts, technology and methodology. Methods in Systems Biology 2011, Elsevier Inc, Westerhoff H, Hayes N, .
    • (2011) Methods in Systems Biology
    • Allwood, J.1    de Vos, C.2    Moing, A.3    Deborde, C.4    Erban, A.5    Kopka, J.6    Goodacre, R.7    Hall, R.8
  • 9
    • 38149124829 scopus 로고    scopus 로고
    • Plant metabolomics reveals conserved and divergent metabolic responses to salinity
    • Sanchez DH, Siahpoosh MR, Roessner U, Udvardi M, Kopka J. Plant metabolomics reveals conserved and divergent metabolic responses to salinity. Physiol Plant 2008, 132:209-219.
    • (2008) Physiol Plant , vol.132 , pp. 209-219
    • Sanchez, D.H.1    Siahpoosh, M.R.2    Roessner, U.3    Udvardi, M.4    Kopka, J.5
  • 11
    • 23044510825 scopus 로고    scopus 로고
    • Biomarker metabolites capturing the metabolite variance present in a rice plant developmental period
    • 10.1186/1471-2229-5-8, 1175851, 15927065
    • Tarpley L, Duran AL, Kebrom TH, Sumner LW. Biomarker metabolites capturing the metabolite variance present in a rice plant developmental period. BMC Plant Biol 2005, 5:8. 10.1186/1471-2229-5-8, 1175851, 15927065.
    • (2005) BMC Plant Biol , vol.5 , pp. 8
    • Tarpley, L.1    Duran, A.L.2    Kebrom, T.H.3    Sumner, L.W.4
  • 12
    • 38149013060 scopus 로고    scopus 로고
    • Plant metabolomics and its potential application for human nutrition
    • Hall RD, Brouwer ID, Fitzgerald MA. Plant metabolomics and its potential application for human nutrition. Physiol Plant 2008, 132:162-175.
    • (2008) Physiol Plant , vol.132 , pp. 162-175
    • Hall, R.D.1    Brouwer, I.D.2    Fitzgerald, M.A.3
  • 13
    • 37549053687 scopus 로고    scopus 로고
    • Fruit juice authentication by 1H NMR spectroscopy in combination with different chemometrics tools
    • Cuny M, Vigneau E, Gall G, Colquhoun I, Lees M, Rutledge DN. Fruit juice authentication by 1H NMR spectroscopy in combination with different chemometrics tools. Anal Bioanal Chem 2007, 390:419-427.
    • (2007) Anal Bioanal Chem , vol.390 , pp. 419-427
    • Cuny, M.1    Vigneau, E.2    Gall, G.3    Colquhoun, I.4    Lees, M.5    Rutledge, D.N.6
  • 16
    • 57749103865 scopus 로고    scopus 로고
    • The transcript and metabolite networks affected by the two clades of Arabidopsis glucosinolate biosynthesis regulators
    • 10.1104/pp.108.124784, 2593676, 18829985
    • Malitsky S, Blum E, Less H, Venger I, Elbaz M, Morin S, Eshed Y, Aharoni A. The transcript and metabolite networks affected by the two clades of Arabidopsis glucosinolate biosynthesis regulators. Plant Physiol 2008, 148:2021-2049. 10.1104/pp.108.124784, 2593676, 18829985.
    • (2008) Plant Physiol , vol.148 , pp. 2021-2049
    • Malitsky, S.1    Blum, E.2    Less, H.3    Venger, I.4    Elbaz, M.5    Morin, S.6    Eshed, Y.7    Aharoni, A.8
  • 17
    • 77951880802 scopus 로고    scopus 로고
    • Metabolomics for functional genomics, systems biology, and biotechnology
    • 10.1146/annurev.arplant.043008.092035, 19152489
    • Saito K, Matsuda F. Metabolomics for functional genomics, systems biology, and biotechnology. Annu Rev Plant Biol 2010, 61:463-89. 10.1146/annurev.arplant.043008.092035, 19152489.
    • (2010) Annu Rev Plant Biol , vol.61 , pp. 463-489
    • Saito, K.1    Matsuda, F.2
  • 18
    • 58149330201 scopus 로고    scopus 로고
    • Metabolomics-assisted breeding: a viable option for crop improvement?
    • 10.1016/j.tig.2008.10.010, 19027981
    • Fernie AR, Schauer N. Metabolomics-assisted breeding: a viable option for crop improvement?. Trends Genet 2009, 25:39-48. 10.1016/j.tig.2008.10.010, 19027981.
    • (2009) Trends Genet , vol.25 , pp. 39-48
    • Fernie, A.R.1    Schauer, N.2
  • 19
    • 34748880585 scopus 로고    scopus 로고
    • Metabolomics, metabolic diversity and genetic variation in crops
    • Harrigan GG, Martino-Catt S, Glenn KC. Metabolomics, metabolic diversity and genetic variation in crops. Metabolomics 2007, 3:259-272.
    • (2007) Metabolomics , vol.3 , pp. 259-272
    • Harrigan, G.G.1    Martino-Catt, S.2    Glenn, K.C.3
  • 20
    • 33645070537 scopus 로고    scopus 로고
    • Plant metabolomics: from holistic hope, to hype, to hot topic
    • 10.1111/j.1469-8137.2005.01632.x, 16411949
    • Hall RD. Plant metabolomics: from holistic hope, to hype, to hot topic. New Phytol 2006, 169:453-468. 10.1111/j.1469-8137.2005.01632.x, 16411949.
    • (2006) New Phytol , vol.169 , pp. 453-468
    • Hall, R.D.1
  • 21
    • 0345270397 scopus 로고    scopus 로고
    • Plant metabolomics: large-scale phytochemistry in the functional genomics era
    • 10.1016/S0031-9422(02)00708-2, 12590110
    • Sumner LW, Mendes P, Dixon RA. Plant metabolomics: large-scale phytochemistry in the functional genomics era. Phytochemistry 2003, 62:817-836. 10.1016/S0031-9422(02)00708-2, 12590110.
    • (2003) Phytochemistry , vol.62 , pp. 817-836
    • Sumner, L.W.1    Mendes, P.2    Dixon, R.A.3
  • 22
    • 13244264923 scopus 로고    scopus 로고
    • Metabolite fingerprinting and profiling in plants using NMR
    • Krishnan P, Kruger NJ, Ratcliffe RG. Metabolite fingerprinting and profiling in plants using NMR. J Exp Bot 2005, 56:255-265.
    • (2005) J Exp Bot , vol.56 , pp. 255-265
    • Krishnan, P.1    Kruger, N.J.2    Ratcliffe, R.G.3
  • 23
    • 33645051391 scopus 로고    scopus 로고
    • Berlin/Heidelberg: Springer-Verlag
    • Ward J, Beale M. Plant Metabolomics 2006, 57. Berlin/Heidelberg: Springer-Verlag.
    • (2006) Plant Metabolomics , vol.57
    • Ward, J.1    Beale, M.2
  • 24
    • 77749320523 scopus 로고    scopus 로고
    • NMR-based metabolomic analysis of plants
    • 10.1038/nprot.2009.237, 20203669
    • Kim HK, Choi YH, Verpoorte R. NMR-based metabolomic analysis of plants. Nat Protoc 2010, 5:536-549. 10.1038/nprot.2009.237, 20203669.
    • (2010) Nat Protoc , vol.5 , pp. 536-549
    • Kim, H.K.1    Choi, Y.H.2    Verpoorte, R.3
  • 27
    • 34248512719 scopus 로고    scopus 로고
    • Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry
    • 10.1038/nprot.2007.95, 17446877
    • de Vos RCH, Moco S, Lommen A, Keurentjes JJB, Bino RJ, Hall RD. Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry. Nat Protoc 2007, 2:778-791. 10.1038/nprot.2007.95, 17446877.
    • (2007) Nat Protoc , vol.2 , pp. 778-791
    • de Vos, R.C.H.1    Moco, S.2    Lommen, A.3    Keurentjes, J.J.B.4    Bino, R.J.5    Hall, R.D.6
  • 28
    • 33846000626 scopus 로고    scopus 로고
    • Mass spectrometry-based metabolomics
    • 10.1002/mas.20108, 1904337, 16921475
    • Dettmer K, Aronov PA, Hammock BD. Mass spectrometry-based metabolomics. Mass Spectrom Rev 2007, 26:51-78. 10.1002/mas.20108, 1904337, 16921475.
    • (2007) Mass Spectrom Rev , vol.26 , pp. 51-78
    • Dettmer, K.1    Aronov, P.A.2    Hammock, B.D.3
  • 30
    • 40149094940 scopus 로고    scopus 로고
    • Quantitative 1H NMR metabolomics reveals extensive metabolic reprogramming of primary and secondary metabolism in elicitor-treated opium poppy cell cultures
    • 10.1186/1471-2229-8-5, 2257952, 18211706
    • Zulak KG, Weljie AM, Vogel HJ, Facchini PJ. Quantitative 1H NMR metabolomics reveals extensive metabolic reprogramming of primary and secondary metabolism in elicitor-treated opium poppy cell cultures. BMC Plant Biol 2008, 8:5. 10.1186/1471-2229-8-5, 2257952, 18211706.
    • (2008) BMC Plant Biol , vol.8 , pp. 5
    • Zulak, K.G.1    Weljie, A.M.2    Vogel, H.J.3    Facchini, P.J.4
  • 32
    • 80054885906 scopus 로고    scopus 로고
    • An inter-laboratory comparison demonstrates that 1H-NMR metabolite fingerprinting is a robust technique for collaborative plant metabolomic data collection
    • 10.1007/s11306-010-0200-4, 2874487, 20526352
    • Ward J, Baker J, Miller S, Deborde C, Maucourt M, Biais B, Rolin D, Moing A, Moco S, Vervoort J, Lommen A, Schäfer H, Humpfer E, Beale M. An inter-laboratory comparison demonstrates that 1H-NMR metabolite fingerprinting is a robust technique for collaborative plant metabolomic data collection. Metabolomics 2010, 6:263-273. 10.1007/s11306-010-0200-4, 2874487, 20526352.
    • (2010) Metabolomics , vol.6 , pp. 263-273
    • Ward, J.1    Baker, J.2    Miller, S.3    Deborde, C.4    Maucourt, M.5    Biais, B.6    Rolin, D.7    Moing, A.8    Moco, S.9    Vervoort, J.10    Lommen, A.11    Schäfer, H.12    Humpfer, E.13    Beale, M.14
  • 36
    • 56649102388 scopus 로고    scopus 로고
    • MeltDB: a software platform for the analysis and integration of metabolomics experiment data
    • 10.1093/bioinformatics/btn452, 18765459
    • Neuweger H, Albaum SP, Dondrup M, Persicke M, Watt T, Niehaus K, Stoye J, Goesmann A. MeltDB: a software platform for the analysis and integration of metabolomics experiment data. Bioinformatics 2008, 24:2726-2732. 10.1093/bioinformatics/btn452, 18765459.
    • (2008) Bioinformatics , vol.24 , pp. 2726-2732
    • Neuweger, H.1    Albaum, S.P.2    Dondrup, M.3    Persicke, M.4    Watt, T.5    Niehaus, K.6    Stoye, J.7    Goesmann, A.8
  • 37
    • 36348979386 scopus 로고    scopus 로고
    • SetupX--a public study design database for metabolomic projects
    • Scholz M, Fiehn O. SetupX--a public study design database for metabolomic projects. Pac Symp Biocomput 2007, 12:169-180.
    • (2007) Pac Symp Biocomput , vol.12 , pp. 169-180
    • Scholz, M.1    Fiehn, O.2
  • 40
    • 67849106535 scopus 로고    scopus 로고
    • MetaboAnalyst: a web server for metabolomic data analysis and interpretation
    • 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:W652-660. 10.1093/nar/gkp356, 2703878, 19429898.
    • (2009) Nucleic Acids Res , vol.37
    • Xia, J.1    Psychogios, N.2    Young, N.3    Wishart, D.S.4
  • 47
    • 27244455777 scopus 로고    scopus 로고
    • Toward supportive data collection tools for plant metabolomics
    • 10.1104/pp.104.058875, 1104162, 15888680
    • Jenkins H, Johnson H, Kular B, Wang T, Hardy N. Toward supportive data collection tools for plant metabolomics. Plant Physiol 2005, 138:67-77. 10.1104/pp.104.058875, 1104162, 15888680.
    • (2005) Plant Physiol , vol.138 , pp. 67-77
    • Jenkins, H.1    Johnson, H.2    Kular, B.3    Wang, T.4    Hardy, N.5
  • 49
    • 0242333513 scopus 로고    scopus 로고
    • Signal denoising and baseline correction by discrete wavelet transform for microchip capillary electrophoresis
    • 10.1002/elps.200305548, 14518054
    • Liu B, Sera Y, Matsubara N, Otsuka K, Terabe S. Signal denoising and baseline correction by discrete wavelet transform for microchip capillary electrophoresis. Electrophoresis 2003, 24:3260-3265. 10.1002/elps.200305548, 14518054.
    • (2003) Electrophoresis , vol.24 , pp. 3260-3265
    • Liu, B.1    Sera, Y.2    Matsubara, N.3    Otsuka, K.4    Terabe, S.5
  • 50
    • 0000873069 scopus 로고
    • A method for the solution of certain problems in least squares
    • Levenberg K. A method for the solution of certain problems in least squares. Quart Appl Math 1944, 2:164-168.
    • (1944) Quart Appl Math , vol.2 , pp. 164-168
    • Levenberg, K.1
  • 51
    • 0036081122 scopus 로고    scopus 로고
    • LIGAND: database of chemical compounds and reactions in biological pathways
    • 10.1093/nar/30.1.402, 99090, 11752349
    • Goto S, Okuno Y, Hattori M, Nishioka T, Kanehisa M. LIGAND: database of chemical compounds and reactions in biological pathways. Nucleic Acids Res 2002, 30:402-404. 10.1093/nar/30.1.402, 99090, 11752349.
    • (2002) Nucleic Acids Res , vol.30 , pp. 402-404
    • Goto, S.1    Okuno, Y.2    Hattori, M.3    Nishioka, T.4    Kanehisa, M.5
  • 52
    • 33747019547 scopus 로고    scopus 로고
    • Centering, scaling, and transformations: improving the biological information content of metabolomics data
    • 10.1186/1471-2164-7-142, 1534033, 16762068
    • van den Berg R, Hoefsloot HCJ, Westerhuis JA, Smilde AK, van der Werf MJ. Centering, scaling, and transformations: improving the biological information content of metabolomics data. BMC Genomics 2006, 7:142. 10.1186/1471-2164-7-142, 1534033, 16762068.
    • (2006) BMC Genomics , vol.7 , pp. 142
    • van den Berg, R.1    Hoefsloot, H.C.J.2    Westerhuis, J.A.3    Smilde, A.K.4    van der Werf, M.J.5
  • 53
    • 77957759689 scopus 로고    scopus 로고
    • The Chemical Translation Service--a web-based tool to improve standardization of metabolomic reports
    • 10.1093/bioinformatics/btq476, 2951090, 20829444
    • Wohlgemuth G, Haldiya PK, Willighagen E, Kind T, Fiehn O. The Chemical Translation Service--a web-based tool to improve standardization of metabolomic reports. Bioinformatics 2010, 26:2647-8. 10.1093/bioinformatics/btq476, 2951090, 20829444., http://uranus.fiehnlab.ucdavis.edu:8080/cts/homePage
    • (2010) Bioinformatics , vol.26 , pp. 2647-2648
    • Wohlgemuth, G.1    Haldiya, P.K.2    Willighagen, E.3    Kind, T.4    Fiehn, O.5
  • 54
    • 67849095416 scopus 로고    scopus 로고
    • BioMart Central Portal--unified access to biological data
    • 10.1093/nar/gkp265, 2703988, 19420058
    • Haider S, Ballester B, Smedley D, Zhang J, Rice P, Kasprzyk A. BioMart Central Portal--unified access to biological data. Nucleic Acids Res 2009, 37:W23-27. 10.1093/nar/gkp265, 2703988, 19420058.
    • (2009) Nucleic Acids Res , vol.37
    • Haider, S.1    Ballester, B.2    Smedley, D.3    Zhang, J.4    Rice, P.5    Kasprzyk, A.6
  • 56
    • 65249164096 scopus 로고    scopus 로고
    • 1H NMR, GC-EI-TOFMS, and data set correlation for fruit metabolomics: application to spatial metabolite analysis in melon
    • 10.1021/ac9001996, 19298059
    • Biais B, Allwood JW, Deborde C, Xu Y, Maucourt M, Beauvoit B, Dunn WB, Jacob D, Goodacre R, Rolin D, Moing A. 1H NMR, GC-EI-TOFMS, and data set correlation for fruit metabolomics: application to spatial metabolite analysis in melon. Anal Chem 2009, 81:2884-2894. 10.1021/ac9001996, 19298059.
    • (2009) Anal Chem , vol.81 , pp. 2884-2894
    • Biais, B.1    Allwood, J.W.2    Deborde, C.3    Xu, Y.4    Maucourt, M.5    Beauvoit, B.6    Dunn, W.B.7    Jacob, D.8    Goodacre, R.9    Rolin, D.10    Moing, A.11


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