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Volumn 11, Issue 6, 2015, Pages 1575-1586

An integrated targeted metabolomic platform for high-throughput metabolite profiling and automated data processing

Author keywords

Bioinformatics; LC MS MS; Metabolite profiling; Multiple reaction monitoring (MRM); Targeted metabolomics

Indexed keywords

ALPHA SYNUCLEIN;

EID: 84944279975     PISSN: 15733882     EISSN: 15733890     Source Type: Journal    
DOI: 10.1007/s11306-015-0809-4     Document Type: Article
Times cited : (124)

References (34)
  • 1
    • 33746606019 scopus 로고    scopus 로고
    • Separation and quantitation of water soluble cellular metabolites by hydrophilic interaction chromatography-tandem mass spectrometry
    • COI: 1:CAS:528:DC%2BD28Xns12nt7k%3D, PID: 16759663
    • Bajad, S. U., Lu, W. Y., Kimball, E. H., Yuan, J., Peterson, C., & Rabinowitz, J. D. (2006). Separation and quantitation of water soluble cellular metabolites by hydrophilic interaction chromatography-tandem mass spectrometry. Journal of Chromatography A,1125(1), 76–88. doi:10.1016/j.chroma.2006.05.019.
    • (2006) Journal of Chromatography A , vol.1125 , Issue.1 , pp. 76-88
    • Bajad, S.U.1    Lu, W.Y.2    Kimball, E.H.3    Yuan, J.4    Peterson, C.5    Rabinowitz, J.D.6
  • 2
    • 77952985821 scopus 로고    scopus 로고
    • Ultrahigh performance liquid chromatography-tandem mass spectrometry method for fast and robust quantification of anionic and aromatic metabolites
    • COI: 1:CAS:528:DC%2BC3cXlsFWrtbg%3D, PID: 20433152
    • Buescher, J. M., Moco, S., Sauer, U., & Zamboni, N. (2010). Ultrahigh performance liquid chromatography-tandem mass spectrometry method for fast and robust quantification of anionic and aromatic metabolites. Analytical Chemistry,82(11), 4403–4412. doi:10.1021/Ac100101d.
    • (2010) Analytical Chemistry , vol.82 , Issue.11 , pp. 4403-4412
    • Buescher, J.M.1    Moco, S.2    Sauer, U.3    Zamboni, N.4
  • 3
    • 84862497463 scopus 로고    scopus 로고
    • Untargeted plasma metabolite profiling reveals the broad systemic consequences of xanthine oxidoreductase inactivation in mice
    • COI: 1:CAS:528:DC%2BC38Xpt1Wksro%3D, PID: 22723833
    • Chen, Q., Park, H. C., Goligorsky, M. S., Chander, P., Fischer, S. M., & Gross, S. S. (2012). Untargeted plasma metabolite profiling reveals the broad systemic consequences of xanthine oxidoreductase inactivation in mice. PLoS ONE,7(6), e37149. doi:10.1371/journal.pone.0037149.
    • (2012) PLoS ONE , vol.7 , Issue.6 , pp. 37149
    • Chen, Q.1    Park, H.C.2    Goligorsky, M.S.3    Chander, P.4    Fischer, S.M.5    Gross, S.S.6
  • 4
    • 84860009126 scopus 로고    scopus 로고
    • LC-MS data processing with MAVEN: a metabolomic analysis and visualization engine
    • Clasquin, M. F., Melamud, E., & Rabinowitz, J. D. (2012). LC-MS data processing with MAVEN: a metabolomic analysis and visualization engine. Current Protocols Bioinformatics,14(Unit14), 11. doi:10.1002/0471250953.bi1411s37.
    • (2012) Current Protocols Bioinformatics , vol.14 , Issue.Unit14 , pp. 11
    • Clasquin, M.F.1    Melamud, E.2    Rabinowitz, J.D.3
  • 5
    • 33846000626 scopus 로고    scopus 로고
    • Mass spectrometry-based metabolomics
    • COI: 1:CAS:528:DC%2BD2sXht1anur8%3D, PID: 16921475
    • Dettmer, K., Aronov, P. A., & Hammock, B. D. (2007). Mass spectrometry-based metabolomics. Mass Spectrometry Reviews,26(1), 51–78. doi:10.1002/Mas.20108.
    • (2007) Mass Spectrometry Reviews , vol.26 , Issue.1 , pp. 51-78
    • Dettmer, K.1    Aronov, P.A.2    Hammock, B.D.3
  • 7
    • 0036007687 scopus 로고    scopus 로고
    • Metabolomics—The link between genotypes and phenotypes
    • COI: 1:CAS:528:DC%2BD38Xht1Kqtr0%3D, PID: 11860207
    • Fiehn, O. (2002). Metabolomics—The link between genotypes and phenotypes. Plant Molecular Biology,48(1–2), 155–171. doi:10.1023/A:1013713905833.
    • (2002) Plant Molecular Biology , vol.48 , Issue.1-2 , pp. 155-171
    • Fiehn, O.1
  • 8
    • 77954439868 scopus 로고    scopus 로고
    • MassBank: A public repository for sharing mass spectral data for life sciences
    • COI: 1:CAS:528:DC%2BC3cXovVCgsLg%3D, PID: 20623627
    • Horai, H., Arita, M., Kanaya, S., Nihei, Y., Ikeda, T., Suwa, K., et al. (2010). MassBank: A public repository for sharing mass spectral data for life sciences. Journal of Mass Spectrometry,45(7), 703–714. doi:10.1002/jms.1777.
    • (2010) Journal of Mass Spectrometry , vol.45 , Issue.7 , pp. 703-714
    • Horai, H.1    Arita, M.2    Kanaya, S.3    Nihei, Y.4    Ikeda, T.5    Suwa, K.6
  • 9
    • 33644867564 scopus 로고    scopus 로고
    • MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data
    • COI: 1:CAS:528:DC%2BD28XhvVeks7o%3D, PID: 16403790
    • Katajamaa, M., Miettinen, J., & Oresic, M. (2006). MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data. Bioinformatics,22(5), 634–636. doi:10.1093/bioinformatics/btk039.
    • (2006) Bioinformatics , vol.22 , Issue.5 , pp. 634-636
    • Katajamaa, M.1    Miettinen, J.2    Oresic, M.3
  • 10
    • 79953292975 scopus 로고    scopus 로고
    • Highly sensitive GC/MS/MS method for quantitation of amino and nonamino organic acids
    • COI: 1:CAS:528:DC%2BC3MXivFCku7g%3D, PID: 21388201
    • Kvitvang, H. F. N., Andreassen, T., Adam, T., Villas-Boas, S. G., & Bruheim, P. (2011). Highly sensitive GC/MS/MS method for quantitation of amino and nonamino organic acids. Analytical Chemistry,83(7), 2705–2711. doi:10.1021/Ac103245b.
    • (2011) Analytical Chemistry , vol.83 , Issue.7 , pp. 2705-2711
    • Kvitvang, H.F.N.1    Andreassen, T.2    Adam, T.3    Villas-Boas, S.G.4    Bruheim, P.5
  • 11
    • 33847358695 scopus 로고    scopus 로고
    • Analytical strategies in metabonomics
    • COI: 1:CAS:528:DC%2BD28Xht12qt7%2FM, PID: 17269702
    • Lenz, E. M., & Wilson, I. D. (2007). Analytical strategies in metabonomics. Journal of Proteome Research,6(2), 443–458. doi:10.1021/Pr0605217.
    • (2007) Journal of Proteome Research , vol.6 , Issue.2 , pp. 443-458
    • Lenz, E.M.1    Wilson, I.D.2
  • 13
    • 65249132985 scopus 로고    scopus 로고
    • MetAlign: Interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing
    • COI: 1:CAS:528:DC%2BD1MXjsVKktbo%3D, PID: 19301908
    • Lommen, A. (2009). MetAlign: Interface-driven, versatile metabolomics tool for hyphenated full-scan mass spectrometry data preprocessing. Analytical Chemistry,81(8), 3079–3086. doi:10.1021/Ac900036d.
    • (2009) Analytical Chemistry , vol.81 , Issue.8 , pp. 3079-3086
    • Lommen, A.1
  • 14
    • 77951965920 scopus 로고    scopus 로고
    • Skyline: an open source document editor for creating and analyzing targeted proteomics experiments
    • COI: 1:CAS:528:DC%2BC3cXjvFykurk%3D, PID: 20147306
    • MacLean, B., Tomazela, D. M., Shulman, N., Chambers, M., Finney, G. L., Frewen, B., et al. (2010). Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics,26(7), 966–968. doi:10.1093/bioinformatics/btq054.
    • (2010) Bioinformatics , vol.26 , Issue.7 , pp. 966-968
    • MacLean, B.1    Tomazela, D.M.2    Shulman, N.3    Chambers, M.4    Finney, G.L.5    Frewen, B.6
  • 15
    • 52349087029 scopus 로고    scopus 로고
    • A screening method for the simultaneous detection of glucocorticoids, diuretics, stimulants, anti-oestrogens, beta-adrenergic drugs and anabolic steroids in human urine by LC-ESI-MS/MS
    • COI: 1:CAS:528:DC%2BD1cXhtFOru7vN, PID: 18704378
    • Mazzarino, M., de la Torre, X., & Botre, F. (2008). A screening method for the simultaneous detection of glucocorticoids, diuretics, stimulants, anti-oestrogens, beta-adrenergic drugs and anabolic steroids in human urine by LC-ESI-MS/MS. Analytical and Bioanalytical Chemistry,392(4), 681–698. doi:10.1007/s00216-008-2292-5.
    • (2008) Analytical and Bioanalytical Chemistry , vol.392 , Issue.4 , pp. 681-698
    • Mazzarino, M.1    de la Torre, X.2    Botre, F.3
  • 16
    • 0031824780 scopus 로고    scopus 로고
    • Alpha synuclein in neurodegenerative disorders: Murderer or accomplice?
    • COI: 1:CAS:528:DyaK1cXktlKgsL8%3D, PID: 9662355
    • Mezey, E., Dehejia, A., Harta, G., Papp, M. I., Polymeropoulos, M. H., & Brownstein, M. J. (1998). Alpha synuclein in neurodegenerative disorders: Murderer or accomplice? Nature Medicine,4(7), 755–757. doi:10.1038/Nm0798-755.
    • (1998) Nature Medicine , vol.4 , Issue.7 , pp. 755-757
    • Mezey, E.1    Dehejia, A.2    Harta, G.3    Papp, M.I.4    Polymeropoulos, M.H.5    Brownstein, M.J.6
  • 17
    • 54549091125 scopus 로고    scopus 로고
    • Systems biology—Metabonomics
    • COI: 1:CAS:528:DC%2BD1cXht1yju7zN, PID: 18948945
    • Nicholson, J. K., & Lindon, J. C. (2008). Systems biology—Metabonomics. Nature,455(7216), 1054–1056. doi:10.1038/4551054a.
    • (2008) Nature , vol.455 , Issue.7216 , pp. 1054-1056
    • Nicholson, J.K.1    Lindon, J.C.2
  • 18
    • 84858790233 scopus 로고    scopus 로고
    • Metabolomics: The apogee of the omics trilogy
    • COI: 1:CAS:528:DC%2BC38XksVent78%3D, PID: 22436749
    • Patti, G. J., Yanes, O., & Siuzdak, G. (2012). Metabolomics: The apogee of the omics trilogy. Nature Reviews Molecular Cell Biology,13(4), 263–269. doi:10.1038/Nrm3314.
    • (2012) Nature Reviews Molecular Cell Biology , vol.13 , Issue.4 , pp. 263-269
    • Patti, G.J.1    Yanes, O.2    Siuzdak, G.3
  • 19
    • 84921324468 scopus 로고    scopus 로고
    • PENS (papular epidermal nevus with “skyline” basal cell layer)
    • COI: 1:STN:280:DC%2BC2MvnvVKjsg%3D%3D, PID: 25600794
    • Pernet, C., Munoz, J., & Bessis, D. (2015). PENS (papular epidermal nevus with “skyline” basal cell layer). Annales de Dermatologie et de Venereologie,142(1), 41–45. doi:10.1016/j.annder.2014.09.003.
    • (2015) Annales de Dermatologie et de Venereologie , vol.142 , Issue.1 , pp. 41-45
    • Pernet, C.1    Munoz, J.2    Bessis, D.3
  • 20
    • 84881663190 scopus 로고    scopus 로고
    • Systems biology: Metabolite turns master regulator
    • COI: 1:CAS:528:DC%2BC3sXht1Cgs7bF, PID: 23925111
    • Rabinowitz, J. D., & Silhavy, T. J. (2013). Systems biology: Metabolite turns master regulator. Nature,500(7462), 283–284. doi:10.1038/nature12544.
    • (2013) Nature , vol.500 , Issue.7462 , pp. 283-284
    • Rabinowitz, J.D.1    Silhavy, T.J.2
  • 21
    • 79955595074 scopus 로고    scopus 로고
    • mProphet: automated data processing and statistical validation for large-scale SRM experiments
    • COI: 1:CAS:528:DC%2BC3MXjsVOisr4%3D, PID: 21423193
    • Reiter, L., Rinner, O., Picotti, P., Huttenhain, R., Beck, M., Brusniak, M. Y., et al. (2011). mProphet: automated data processing and statistical validation for large-scale SRM experiments. Nature Methods,8(5), 430–435. doi:10.1038/nmeth.1584.
    • (2011) Nature Methods , vol.8 , Issue.5 , pp. 430-435
    • Reiter, L.1    Rinner, O.2    Picotti, P.3    Huttenhain, R.4    Beck, M.5    Brusniak, M.Y.6
  • 23
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: Processing mass spectrometry data for metabolite profiling using Nonlinear peak alignment, matching, and identification
    • COI: 1:CAS:528:DC%2BD28XitVyqtA%3D%3D, PID: 16448051
    • Smith, C. A., Want, E. J., O’Maille, G., Abagyan, R., & Siuzdak, G. (2006). XCMS: Processing mass spectrometry data for metabolite profiling using Nonlinear peak alignment, matching, and identification. Analytical Chemistry,78(3), 779–787. doi:10.1021/Ac051437y.
    • (2006) Analytical Chemistry , 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
  • 24
    • 60649089559 scopus 로고    scopus 로고
    • Highly sensitive feature detection for high resolution LC/MS
    • Tautenhahn, R., Bottcher, C., & Neumann, S. (2008). Highly sensitive feature detection for high resolution LC/MS. BMC Bioinformatics,. doi:10.1186/1471-2105-9-504.
    • (2008) BMC Bioinformatics
    • Tautenhahn, R.1    Bottcher, C.2    Neumann, S.3
  • 25
    • 84866123900 scopus 로고    scopus 로고
    • An accelerated workflow for untargeted metabolomics using the METLIN database
    • COI: 1:CAS:528:DC%2BC38XhtlamtbnJ, PID: 22965049
    • Tautenhahn, R., Cho, K., Uritboonthai, W., Zhu, Z. J., Patti, G. J., & Siuzdak, G. (2012). An accelerated workflow for untargeted metabolomics using the METLIN database. Nature Biotechnology,30(9), 826–828. doi:10.1038/Nbt.2348.
    • (2012) Nature Biotechnology , vol.30 , Issue.9 , pp. 826-828
    • Tautenhahn, R.1    Cho, K.2    Uritboonthai, W.3    Zhu, Z.J.4    Patti, G.J.5    Siuzdak, G.6
  • 26
    • 79952124278 scopus 로고    scopus 로고
    • metaXCMS: second-order analysis of untargeted metabolomics data
    • COI: 1:CAS:528:DC%2BC3cXhsF2msLjP, PID: 21174458
    • Tautenhahn, R., Patti, G. J., Kalisiak, E., Miyamoto, T., Schmidt, M., Lo, F. Y., et al. (2011). metaXCMS: second-order analysis of untargeted metabolomics data. Analytical Chemistry,83(3), 696–700. doi:10.1021/ac102980g.
    • (2011) Analytical Chemistry , vol.83 , Issue.3 , pp. 696-700
    • Tautenhahn, R.1    Patti, G.J.2    Kalisiak, E.3    Miyamoto, T.4    Schmidt, M.5    Lo, F.Y.6
  • 27
    • 84878274712 scopus 로고    scopus 로고
    • MRMPROBS: A data assessment and metabolite identification tool for large-scale multiple reaction monitoring based widely targeted metabolomics
    • COI: 1:CAS:528:DC%2BC3sXlvVyksbo%3D, PID: 23581547
    • Tsugawa, H., Arita, M., Kanazawa, M., Ogiwara, A., Bamba, T., & Fukusaki, E. (2013). MRMPROBS: A data assessment and metabolite identification tool for large-scale multiple reaction monitoring based widely targeted metabolomics. Analytical Chemistry,85(10), 5191–5199. doi:10.1021/Ac400515s.
    • (2013) Analytical Chemistry , vol.85 , Issue.10 , pp. 5191-5199
    • Tsugawa, H.1    Arita, M.2    Kanazawa, M.3    Ogiwara, A.4    Bamba, T.5    Fukusaki, E.6
  • 28
    • 84906223658 scopus 로고    scopus 로고
    • MRMPROBS suite for metabolomics using large-scale MRM assays
    • COI: 1:CAS:528:DC%2BC2cXhtlSrtbbN, PID: 24753485
    • Tsugawa, H., Kanazawa, M., Ogiwara, A., & Arita, M. (2014). MRMPROBS suite for metabolomics using large-scale MRM assays. Bioinformatics,30(16), 2379–2380. doi:10.1093/bioinformatics/btu203.
    • (2014) Bioinformatics , vol.30 , Issue.16 , pp. 2379-2380
    • Tsugawa, H.1    Kanazawa, M.2    Ogiwara, A.3    Arita, M.4
  • 29
    • 77954197821 scopus 로고    scopus 로고
    • High-throughput and multiplexed LC/MS/MRM method for targeted metabolomics
    • COI: 1:CAS:528:DC%2BC3cXmvF2qsb4%3D, PID: 20524683
    • Wei, R., Li, G. D., & Seymour, A. B. (2010). High-throughput and multiplexed LC/MS/MRM method for targeted metabolomics. Analytical Chemistry,82(13), 5527–5533. doi:10.1021/Ac100331b.
    • (2010) Analytical Chemistry , vol.82 , Issue.13 , pp. 5527-5533
    • Wei, R.1    Li, G.D.2    Seymour, A.B.3
  • 30
    • 84855396616 scopus 로고    scopus 로고
    • MMSAT: Automated quantification of metabolites in selected reaction monitoring experiments
    • COI: 1:CAS:528:DC%2BC3MXhsFansLbL, PID: 22111688
    • Wong, J. W., Abuhusain, H. J., McDonald, K. L., & Don, A. S. (2012). MMSAT: Automated quantification of metabolites in selected reaction monitoring experiments. Analytical Chemistry,84(1), 470–474. doi:10.1021/ac2026578.
    • (2012) Analytical Chemistry , vol.84 , Issue.1 , pp. 470-474
    • Wong, J.W.1    Abuhusain, H.J.2    McDonald, K.L.3    Don, A.S.4
  • 31
    • 67849106535 scopus 로고    scopus 로고
    • MetaboAnalyst: A web server for metabolomic data analysis and interpretation
    • COI: 1:CAS:528:DC%2BD1MXosFSkt7c%3D, PID: 19429898
    • Xia, J. G., Psychogios, N., Young, N., & Wishart, D. S. (2009). MetaboAnalyst: A web server for metabolomic data analysis and interpretation. Nucleic Acids Research,37, W652–W660. doi:10.1093/Nar/Gkp356.
    • (2009) Nucleic Acids Research , vol.37 , pp. 652-660
    • Xia, J.G.1    Psychogios, N.2    Young, N.3    Wishart, D.S.4
  • 32
    • 79958115671 scopus 로고    scopus 로고
    • Web-based inference of biological patterns, functions and pathways from metabolomic data using MetaboAnalyst
    • COI: 1:CAS:528:DC%2BC3MXmvFyqtL0%3D, PID: 21637195
    • Xia, J. G., & Wishart, D. S. (2011). Web-based inference of biological patterns, functions and pathways from metabolomic data using MetaboAnalyst. Nature Protocols,6(6), 743–760. doi:10.1038/nprot.2011.319.
    • (2011) Nature Protocols , vol.6 , Issue.6 , pp. 743-760
    • Xia, J.G.1    Wishart, D.S.2
  • 33
    • 84860352139 scopus 로고    scopus 로고
    • A positive/negative ion-switching, targeted mass spectrometry-based metabolomics platform for bodily fluids, cells, and fresh and fixed tissue
    • COI: 1:CAS:528:DC%2BC38XlsVSgsL8%3D, PID: 22498707
    • Yuan, M., Breitkopf, S. B., Yang, X. M., & Asara, J. M. (2012). A positive/negative ion-switching, targeted mass spectrometry-based metabolomics platform for bodily fluids, cells, and fresh and fixed tissue. Nature Protocols,7(5), 872–881. doi:10.1038/nprot.2012.024.
    • (2012) Nature Protocols , vol.7 , Issue.5 , pp. 872-881
    • Yuan, M.1    Breitkopf, S.B.2    Yang, X.M.3    Asara, J.M.4
  • 34
    • 84875123279 scopus 로고    scopus 로고
    • Liquid chromatography quadrupole time-of-flight mass spectrometry characterization of metabolites guided by the METLIN database
    • COI: 1:CAS:528:DC%2BC3sXisVGru7s%3D, PID: 23391889
    • Zhu, Z. J., Schultz, A. W., Wang, J. H., Johnson, C. H., Yannone, S. M., Patti, G. J., et al. (2013). Liquid chromatography quadrupole time-of-flight mass spectrometry characterization of metabolites guided by the METLIN database. Nature Protocols,8(3), 451–460. doi:10.1038/nprot.2013.004.
    • (2013) Nature Protocols , vol.8 , Issue.3 , pp. 451-460
    • Zhu, Z.J.1    Schultz, A.W.2    Wang, J.H.3    Johnson, C.H.4    Yannone, S.M.5    Patti, G.J.6


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