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Volumn 82, Issue , 2016, Pages 425-442

Data analysis strategies for targeted and untargeted LC-MS metabolomic studies: Overview and workflow

Author keywords

Chemometric tools; Data analysis; Liquid chromatography; Mass spectrometry; Metabolomics; Target; Untarget

Indexed keywords

CLASSIFICATION (OF INFORMATION); CLUSTERING ALGORITHMS; DATA REDUCTION; INFORMATION ANALYSIS; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; SPECTROMETRY; TARGETS;

EID: 84979695814     PISSN: 01659936     EISSN: 18793142     Source Type: Journal    
DOI: 10.1016/j.trac.2016.07.004     Document Type: Review
Times cited : (258)

References (201)
  • 2
    • 0036007687 scopus 로고    scopus 로고
    • Metabolomics – the link between genotypes and phenotypes
    • [2] Fiehn, O., Metabolomics – the link between genotypes and phenotypes. Plant Mol. Biol 48 (2002), 155–171, 10.1023/A:1013713905833.
    • (2002) Plant Mol. Biol , vol.48 , pp. 155-171
    • Fiehn, O.1
  • 3
    • 84858790233 scopus 로고    scopus 로고
    • Innovation: metabolomics: the apogee of the omics trilogy
    • [3] Patti, G.J., Yanes, O., Siuzdak, G., Innovation: metabolomics: the apogee of the omics trilogy. Nat. Rev. Mol. Cell Biol 13 (2012), 263–269, 10.1038/nrm3314.
    • (2012) Nat. Rev. Mol. Cell Biol , vol.13 , pp. 263-269
    • Patti, G.J.1    Yanes, O.2    Siuzdak, G.3
  • 4
    • 84882254552 scopus 로고    scopus 로고
    • Deciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers
    • [4] Chadeau-Hyam, M., Campanella, G., Jombart, T., Bottolo, L., Portengen, L., Vineis, P., et al. Deciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers. Environ. Mol. Mutagen 54 (2013), 542–557, 10.1002/em.21797.
    • (2013) Environ. Mol. Mutagen , vol.54 , pp. 542-557
    • Chadeau-Hyam, M.1    Campanella, G.2    Jombart, T.3    Bottolo, L.4    Portengen, L.5    Vineis, P.6
  • 5
    • 84885726676 scopus 로고    scopus 로고
    • Criteria for the use of omics-based predictors in clinical trials: explanation and elaboration
    • [5] McShane, L.M., Cavenagh, M.M., Lively, T.G., Eberhard, D.A., Bigbee, W.L., Williams, P.M., et al. Criteria for the use of omics-based predictors in clinical trials: explanation and elaboration. BMC Med, 11, 2013, 220, 10.1186/1741-7015-11-220.
    • (2013) BMC Med , vol.11 , pp. 220
    • McShane, L.M.1    Cavenagh, M.M.2    Lively, T.G.3    Eberhard, D.A.4    Bigbee, W.L.5    Williams, P.M.6
  • 6
    • 84872418546 scopus 로고    scopus 로고
    • Foodomics: a new comprehensive approach to food and nutrition
    • [6] Capozzi, F., Bordoni, A., Foodomics: a new comprehensive approach to food and nutrition. Genes Nutr 8 (2013), 1–4, 10.1007/s12263-012-0310-x.
    • (2013) Genes Nutr , vol.8 , pp. 1-4
    • Capozzi, F.1    Bordoni, A.2
  • 7
    • 61849165638 scopus 로고    scopus 로고
    • Environmental metabolomics: a critical review and future perspectives
    • [7] Bundy, J.G., Davey, M.P., Viant, M.R., Environmental metabolomics: a critical review and future perspectives. Metabolomics 5 (2008), 3–21, 10.1007/s11306-008-0152-0.
    • (2008) Metabolomics , vol.5 , pp. 3-21
    • Bundy, J.G.1    Davey, M.P.2    Viant, M.R.3
  • 8
    • 84874367641 scopus 로고    scopus 로고
    • Mass spectrometry based environmental metabolomics: a primer and review
    • [8] Viant, M.R., Sommer, U., Mass spectrometry based environmental metabolomics: a primer and review. Metabolomics 9 (2012), 144–158, 10.1007/s11306-012-0412-x.
    • (2012) Metabolomics , vol.9 , pp. 144-158
    • Viant, M.R.1    Sommer, U.2
  • 9
    • 0025879424 scopus 로고
    • Complementary DNA sequencing: expressed sequence tags and human genome project
    • [9] Adams, M., Kelley, J., Gocayne, J., Dubnick, M., Polymeropoulos, M., Xiao, H., et al. Complementary DNA sequencing: expressed sequence tags and human genome project. Science 252 (1991), 1651–1656, 10.1126/science.2047873.
    • (1991) Science , vol.252 , pp. 1651-1656
    • Adams, M.1    Kelley, J.2    Gocayne, J.3    Dubnick, M.4    Polymeropoulos, M.5    Xiao, H.6
  • 10
    • 3042701155 scopus 로고    scopus 로고
    • Epigenomics: beyond CpG islands
    • [10] Fazzari, M.J., Greally, J.M., Epigenomics: beyond CpG islands. Nat. Rev. Genet 5 (2004), 446–455, 10.1038/nrg1349.
    • (2004) Nat. Rev. Genet , vol.5 , pp. 446-455
    • Fazzari, M.J.1    Greally, J.M.2
  • 11
    • 0033576372 scopus 로고    scopus 로고
    • Proteomics, transcriptomics: what's in a name?
    • [11] Abbott, A., Proteomics, transcriptomics: what's in a name?. Nature 402 (1999), 715–720, 10.1038/45354.
    • (1999) Nature , vol.402 , pp. 715-720
    • Abbott, A.1
  • 12
    • 0031848226 scopus 로고    scopus 로고
    • Proteome and proteomics: new technologies, new concepts, and new words
    • [12] Anderson, N.L., Anderson, N.G., Proteome and proteomics: new technologies, new concepts, and new words. Electrophoresis 19 (1998), 1853–1861, 10.1002/elps.1150191103.
    • (1998) Electrophoresis , vol.19 , pp. 1853-1861
    • Anderson, N.L.1    Anderson, N.G.2
  • 13
    • 84880044091 scopus 로고    scopus 로고
    • Fluxomics – connecting ‘omics analysis and phenotypes
    • [13] Winter, G., Krömer, J.O., Fluxomics – connecting ‘omics analysis and phenotypes. Environ. Microbiol 15 (2013), 1901–1916, 10.1111/1462-2920.12064.
    • (2013) Environ. Microbiol , vol.15 , pp. 1901-1916
    • Winter, G.1    Krömer, J.O.2
  • 14
    • 58149263489 scopus 로고    scopus 로고
    • Metabolomics and fluxomics approaches
    • [14] Cascante, M., Marin, S., Metabolomics and fluxomics approaches. Essays Biochem 45 (2008), 67–81, 10.1042/BSE0450067.
    • (2008) Essays Biochem , vol.45 , pp. 67-81
    • Cascante, M.1    Marin, S.2
  • 15
    • 0141653274 scopus 로고    scopus 로고
    • Global analyses of cellular lipidomes directly from crude extracts of biological samples by ESI mass spectrometry: a bridge to lipidomics
    • [15] Han, X., Gross, R.W., Global analyses of cellular lipidomes directly from crude extracts of biological samples by ESI mass spectrometry: a bridge to lipidomics. J. Lipid Res 44 (2003), 1071–1079, 10.1194/jlr.R300004-JLR200.
    • (2003) J. Lipid Res , vol.44 , pp. 1071-1079
    • Han, X.1    Gross, R.W.2
  • 16
    • 33846385736 scopus 로고    scopus 로고
    • Emerging glycomics technologies
    • [16] Turnbull, J.E., Field, R.A., Emerging glycomics technologies. Nat. Chem. Biol 3 (2007), 74–77, 10.1038/nchembio0207-74.
    • (2007) Nat. Chem. Biol , vol.3 , pp. 74-77
    • Turnbull, J.E.1    Field, R.A.2
  • 18
    • 76449115656 scopus 로고    scopus 로고
    • Integrating multiple “omics” analysis for microbial biology: application and methodologies
    • [18] Zhang, W., Li, F., Nie, L., Integrating multiple “omics” analysis for microbial biology: application and methodologies. Microbiology 156 (2010), 287–301, 10.1099/mic.0.034793-0.
    • (2010) Microbiology , vol.156 , pp. 287-301
    • Zhang, W.1    Li, F.2    Nie, L.3
  • 19
    • 73149106404 scopus 로고    scopus 로고
    • Chromium interactions in plants: current status and future strategies
    • [19] Shanker, A.K., Djanaguiraman, M., Venkateswarlu, B., Chromium interactions in plants: current status and future strategies. Metallomics 1 (2009), 375–383, 10.1039/b904571f.
    • (2009) Metallomics , vol.1 , pp. 375-383
    • Shanker, A.K.1    Djanaguiraman, M.2    Venkateswarlu, B.3
  • 20
    • 0036463681 scopus 로고    scopus 로고
    • Metabonomics: a platform for studying drug toxicity and gene function
    • [20] Nicholson, J.K., Connelly, J., Lindon, J.C., Holmes, E., Metabonomics: a platform for studying drug toxicity and gene function. Nat. Rev. Drug Discov 1 (2002), 153–161, 10.1038/nrd728.
    • (2002) Nat. Rev. Drug Discov , vol.1 , pp. 153-161
    • Nicholson, J.K.1    Connelly, J.2    Lindon, J.C.3    Holmes, E.4
  • 21
    • 84882733209 scopus 로고    scopus 로고
    • Identification of metabolic pathways in Daphnia magna explaining hormetic effects of selective serotonin reuptake inhibitors and 4-nonylphenol using transcriptomic and phenotypic responses
    • [21] Campos, B., Garcia-Reyero, N., Rivetti, C., Escalon, L., Habib, T., Tauler, R., et al. Identification of metabolic pathways in Daphnia magna explaining hormetic effects of selective serotonin reuptake inhibitors and 4-nonylphenol using transcriptomic and phenotypic responses. Environ. Sci. Technol 47 (2013), 9434–9443, 10.1021/es4012299.
    • (2013) Environ. Sci. Technol , vol.47 , pp. 9434-9443
    • Campos, B.1    Garcia-Reyero, N.2    Rivetti, C.3    Escalon, L.4    Habib, T.5    Tauler, R.6
  • 22
    • 79956103990 scopus 로고    scopus 로고
    • NMR-based plant metabolomics: where do we stand, where do we go?
    • [22] Kim, H.K., Choi, Y.H., Verpoorte, R., NMR-based plant metabolomics: where do we stand, where do we go?. Trends Biotechnol 29 (2011), 267–275, 10.1016/j.tibtech.2011.02.001.
    • (2011) Trends Biotechnol , vol.29 , pp. 267-275
    • Kim, H.K.1    Choi, Y.H.2    Verpoorte, R.3
  • 23
    • 84944277732 scopus 로고    scopus 로고
    • A quantitative 1H NMR approach for evaluating the metabolic response of Saccharomyces cerevisiae to mild heat stress
    • [23] Puig-Castellví, F., Alfonso, I., Piña, B., Tauler, R., A quantitative 1H NMR approach for evaluating the metabolic response of Saccharomyces cerevisiae to mild heat stress. Metabolomics 11 (2015), 1612–1625, 10.1007/s11306-015-0812-9.
    • (2015) Metabolomics , vol.11 , pp. 1612-1625
    • Puig-Castellví, F.1    Alfonso, I.2    Piña, B.3    Tauler, R.4
  • 24
    • 13244249953 scopus 로고    scopus 로고
    • Chemical derivatization and mass spectral libraries in metabolic profiling by GC/MS and LC/MS/MS
    • [24] Halket, J.M., Chemical derivatization and mass spectral libraries in metabolic profiling by GC/MS and LC/MS/MS. J. Exp. Bot 56 (2004), 219–243, 10.1093/jxb/eri069.
    • (2004) J. Exp. Bot , vol.56 , pp. 219-243
    • Halket, J.M.1
  • 25
    • 33846000626 scopus 로고    scopus 로고
    • Mass spectrometry-based metabolomics
    • [25] Dettmer, K., Aronov, P.A., Hammock, B.D., Mass spectrometry-based metabolomics. Mass Spectrom. Rev 26 (2007), 51–78, 10.1002/mas.20108.
    • (2007) Mass Spectrom. Rev , vol.26 , pp. 51-78
    • Dettmer, K.1    Aronov, P.A.2    Hammock, B.D.3
  • 26
    • 0024946615 scopus 로고
    • High resolution proton magnetic resonance spectroscopy of biological fluids
    • [26] Nicholson, J.K., Wilson, I.D., High resolution proton magnetic resonance spectroscopy of biological fluids. Prog. Nucl. Magn. Reson. Spectrosc 21 (1989), 449–501, 10.1016/0079-6565(89)80008-1.
    • (1989) Prog. Nucl. Magn. Reson. Spectrosc , vol.21 , pp. 449-501
    • Nicholson, J.K.1    Wilson, I.D.2
  • 27
    • 0042338519 scopus 로고    scopus 로고
    • Peer reviewed: so what's the deal with metabonomics?
    • [27] Lindon, J.C., Holmes, E., Nicholson, J.K., Peer reviewed: so what's the deal with metabonomics?. Anal. Chem 75 (2003), 384 A–391 A, 10.1021/ac031386.
    • (2003) Anal. Chem , vol.75 , pp. 384 A-391 A
    • Lindon, J.C.1    Holmes, E.2    Nicholson, J.K.3
  • 28
    • 79956129310 scopus 로고    scopus 로고
    • Characterization of isotopic abundance measurements in high resolution FT-ICR and Orbitrap mass spectra for improved confidence of metabolite identification
    • [28] Weber, R.J.M., Southam, A.D., Sommer, U., Viant, M.R., Characterization of isotopic abundance measurements in high resolution FT-ICR and Orbitrap mass spectra for improved confidence of metabolite identification. Anal. Chem 83 (2011), 3737–3743, 10.1021/ac2001803.
    • (2011) Anal. Chem , vol.83 , pp. 3737-3743
    • Weber, R.J.M.1    Southam, A.D.2    Sommer, U.3    Viant, M.R.4
  • 30
    • 17444404226 scopus 로고    scopus 로고
    • High resolution “ultra performance” liquid chromatography coupled to oa-TOF mass spectrometry as a tool for differential metabolic pathway profiling in functional genomic studies
    • [30] Wilson, I.D., Nicholson, J.K., Castro-Perez, J., Granger, J.H., Johnson, K.A., Smith, B.W., et al. High resolution “ultra performance” liquid chromatography coupled to oa-TOF mass spectrometry as a tool for differential metabolic pathway profiling in functional genomic studies. J. Proteome Res 4 (2005), 591–598, 10.1021/pr049769r.
    • (2005) J. Proteome Res , vol.4 , pp. 591-598
    • Wilson, I.D.1    Nicholson, J.K.2    Castro-Perez, J.3    Granger, J.H.4    Johnson, K.A.5    Smith, B.W.6
  • 31
    • 34547636487 scopus 로고    scopus 로고
    • Investigation of the advanced functionalities of a hybrid quadrupole orthogonal acceleration time-of-flight mass spectrometer
    • [31] Weaver, P.J., Laures, A.M.-F., Wolff, J.-C., Investigation of the advanced functionalities of a hybrid quadrupole orthogonal acceleration time-of-flight mass spectrometer. Rapid Commun. Mass Spectrom 21 (2007), 2415–2421, 10.1002/rcm.3052.
    • (2007) Rapid Commun. Mass Spectrom , vol.21 , pp. 2415-2421
    • Weaver, P.J.1    Laures, A.M.-F.2    Wolff, J.-C.3
  • 32
    • 14744300520 scopus 로고    scopus 로고
    • Metabolomics applications of FT-ICR mass spectrometry
    • [32] Brown, S.C., Kruppa, G., Dasseux, J.-L., Metabolomics applications of FT-ICR mass spectrometry. Mass Spectrom. Rev 24 (2005), 223–231, 10.1002/mas.20011.
    • (2005) Mass Spectrom. Rev , vol.24 , pp. 223-231
    • Brown, S.C.1    Kruppa, G.2    Dasseux, J.-L.3
  • 33
    • 66149192291 scopus 로고    scopus 로고
    • High-resolution extracted ion chromatography, a new tool for metabolomics and lipidomics using a second-generation orbitrap mass spectrometer
    • [33] Koulman, A., Woffendin, G., Narayana, V.K., Welchman, H., Crone, C., Volmer, D.A., High-resolution extracted ion chromatography, a new tool for metabolomics and lipidomics using a second-generation orbitrap mass spectrometer. Rapid Commun. Mass Spectrom 23 (2009), 1411–1418, 10.1002/rcm.4015.
    • (2009) Rapid Commun. Mass Spectrom , vol.23 , pp. 1411-1418
    • Koulman, A.1    Woffendin, G.2    Narayana, V.K.3    Welchman, H.4    Crone, C.5    Volmer, D.A.6
  • 34
    • 84947439669 scopus 로고    scopus 로고
    • High resolution mass spectrometry for structural identification of metabolites in metabolomics
    • [34] Rathahao-Paris, E., Alves, S., Junot, C., Tabet, J.-C., High resolution mass spectrometry for structural identification of metabolites in metabolomics. Metabolomics, 12, 2015, 10, 10.1007/s11306-015-0882-8.
    • (2015) Metabolomics , vol.12 , pp. 10
    • Rathahao-Paris, E.1    Alves, S.2    Junot, C.3    Tabet, J.-C.4
  • 35
    • 29344435772 scopus 로고    scopus 로고
    • Extraction and GC/MS analysis of the human blood plasma metabolome
    • [35] Jiye, A., Trygg, J., Gullberg, J., Johansson, A.I., Jonsson, P., Antti, H., et al. Extraction and GC/MS analysis of the human blood plasma metabolome. Anal. Chem 77 (2005), 8086–8094, 10.1021/ac051211v.
    • (2005) Anal. Chem , vol.77 , pp. 8086-8094
    • Jiye, A.1    Trygg, J.2    Gullberg, J.3    Johansson, A.I.4    Jonsson, P.5    Antti, H.6
  • 37
    • 60649089559 scopus 로고    scopus 로고
    • Highly sensitive feature detection for high resolution LC/MS
    • [37] Tautenhahn, R., Böttcher, C., Neumann, S., Highly sensitive feature detection for high resolution LC/MS. BMC Bioinformatics, 9, 2008, 504, 10.1186/1471-2105-9-504.
    • (2008) BMC Bioinformatics , vol.9 , pp. 504
    • Tautenhahn, R.1    Böttcher, C.2    Neumann, S.3
  • 38
    • 73349090880 scopus 로고    scopus 로고
    • Sample preparation for plant metabolomics
    • [38] Kim, H.K., Verpoorte, R., Sample preparation for plant metabolomics. Phytochem. Anal 21 (2010), 4–13, 10.1002/pca.1188.
    • (2010) Phytochem. Anal , vol.21 , pp. 4-13
    • Kim, H.K.1    Verpoorte, R.2
  • 39
    • 84865583539 scopus 로고    scopus 로고
    • Role of liquid chromatography–high-resolution mass spectrometry (LC-HR/MS) in clinical toxicology
    • [39] Wu, A.H., Gerona, R., Armenian, P., French, D., Petrie, M., Lynch, K.L., Role of liquid chromatography–high-resolution mass spectrometry (LC-HR/MS) in clinical toxicology. Clin. Toxicol 50 (2012), 733–742, 10.3109/15563650.2012.713108.
    • (2012) Clin. Toxicol , vol.50 , pp. 733-742
    • Wu, A.H.1    Gerona, R.2    Armenian, P.3    French, D.4    Petrie, M.5    Lynch, K.L.6
  • 40
    • 84892674763 scopus 로고    scopus 로고
    • Harnessing the complexity of metabolomic data with chemometrics
    • [40] Boccard, J., Rudaz, S., Harnessing the complexity of metabolomic data with chemometrics. J. Chemometrics 28 (2014), 1–9, 10.1002/cem.2567.
    • (2014) J. Chemometrics , vol.28 , pp. 1-9
    • Boccard, J.1    Rudaz, S.2
  • 41
    • 25444526868 scopus 로고    scopus 로고
    • Processing methods for differential analysis of LC/MS profile data
    • [41] Katajamaa, M., Orešič, M., Processing methods for differential analysis of LC/MS profile data. BMC Bioinformatics, 6, 2005, 1, 10.1186/1471-2105-6-179.
    • (2005) BMC Bioinformatics , vol.6 , pp. 1
    • Katajamaa, M.1    Orešič, M.2
  • 43
    • 34248512719 scopus 로고    scopus 로고
    • Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry
    • [43] De Vos, R.C.H., Moco, S., Lommen, A., Keurentjes, J.J.B., Bino, R.J., Hall, R.D., Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry. Nat. Protoc 2 (2007), 778–791, 10.1038/nprot.2007.95.
    • (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
  • 44
    • 3242667214 scopus 로고    scopus 로고
    • Potential of fermentation profiling via rapid measurement of amino acid metabolism by liquid chromatography–tandem mass spectrometry
    • [44] Dalluge, J.J., Smith, S., Sanchez-Riera, F., McGuire, C., Hobson, R., Potential of fermentation profiling via rapid measurement of amino acid metabolism by liquid chromatography–tandem mass spectrometry. J. Chromatogr. A 1043 (2004), 3–7, 10.1016/j.chroma.2004.02.010.
    • (2004) J. Chromatogr. A , vol.1043 , pp. 3-7
    • Dalluge, J.J.1    Smith, S.2    Sanchez-Riera, F.3    McGuire, C.4    Hobson, R.5
  • 45
    • 58449134032 scopus 로고    scopus 로고
    • Widely targeted metabolomics based on large-scale MS/MS data for elucidating metabolite accumulation patterns in plants
    • [45] Sawada, Y., Akiyama, K., Sakata, A., Kuwahara, A., Otsuki, H., Sakurai, T., et al. Widely targeted metabolomics based on large-scale MS/MS data for elucidating metabolite accumulation patterns in plants. Plant Cell Physiol 50 (2009), 37–47, 10.1093/pcp/pcn183.
    • (2009) Plant Cell Physiol , vol.50 , pp. 37-47
    • Sawada, Y.1    Akiyama, K.2    Sakata, A.3    Kuwahara, A.4    Otsuki, H.5    Sakurai, T.6
  • 46
    • 84863456541 scopus 로고    scopus 로고
    • Liquid chromatography-mass spectrometric multiple reaction monitoring-based strategies for expanding targeted profiling towards quantitative metabolomics
    • accessed 20.01.16
    • [46] Guo, B., Chen, B., Liu, A., Zhu, W., Yao, S., Liquid chromatography-mass spectrometric multiple reaction monitoring-based strategies for expanding targeted profiling towards quantitative metabolomics. Curr. Drug Metab 13 (2012), 1226–1243 http://www.ncbi.nlm.nih.gov/pubmed/22519369 accessed 20.01.16.
    • (2012) Curr. Drug Metab , vol.13 , pp. 1226-1243
    • Guo, B.1    Chen, B.2    Liu, A.3    Zhu, W.4    Yao, S.5
  • 47
    • 84950126258 scopus 로고    scopus 로고
    • Globally Optimized Targeted Mass Spectrometry (GOT-MS): reliable metabolomics analysis with broad coverage
    • [47] Gu, H., Zhang, P., Zhu, J., Raftery, D., Globally Optimized Targeted Mass Spectrometry (GOT-MS): reliable metabolomics analysis with broad coverage. Anal. Chem, 2015, 10.1021/acs.analchem.5b03812.
    • (2015) Anal. Chem
    • Gu, H.1    Zhang, P.2    Zhu, J.3    Raftery, D.4
  • 48
    • 84948649492 scopus 로고    scopus 로고
    • Spatio-temporal distribution and natural variation of metabolites in citrus fruits
    • [48] Wang, S., Tu, H., Wan, J., Chen, W., Liu, X., Luo, J., et al. Spatio-temporal distribution and natural variation of metabolites in citrus fruits. Food Chem 199 (2016), 8–17, 10.1016/j.foodchem.2015.11.113.
    • (2016) Food Chem , vol.199 , pp. 8-17
    • Wang, S.1    Tu, H.2    Wan, J.3    Chen, W.4    Liu, X.5    Luo, J.6
  • 49
    • 79960144635 scopus 로고    scopus 로고
    • Algorithms and tools for the preprocessing of LC–MS metabolomics data
    • [49] Castillo, S., Gopalacharyulu, P., Yetukuri, L., Orešič, M., Algorithms and tools for the preprocessing of LC–MS metabolomics data. Chemometr. Intell. Lab 108 (2011), 23–32, 10.1016/j.chemolab.2011.03.010.
    • (2011) Chemometr. Intell. Lab , vol.108 , pp. 23-32
    • Castillo, S.1    Gopalacharyulu, P.2    Yetukuri, L.3    Orešič, M.4
  • 50
    • 84947763523 scopus 로고    scopus 로고
    • High-throughput platforms for metabolomics
    • [50] de Raad, M., Fischer, C.R., Northen, T.R., High-throughput platforms for metabolomics. Curr. Opin. Chem. Biol 30 (2015), 7–13, 10.1016/j.cbpa.2015.10.012.
    • (2015) Curr. Opin. Chem. Biol , vol.30 , pp. 7-13
    • de Raad, M.1    Fischer, C.R.2    Northen, T.R.3
  • 51
    • 84977744133 scopus 로고    scopus 로고
    • Chemometric methods in data processing of mass spectrometry-based metabolomics: a review
    • [51] Yi, L., Dong, N., Yun, Y., Deng, B., Ren, D., Liu, S., et al. Chemometric methods in data processing of mass spectrometry-based metabolomics: a review. Anal. Chim. Acta 914 (2016), 17–34, 10.1016/j.aca.2016.02.001.
    • (2016) Anal. Chim. Acta , vol.914 , pp. 17-34
    • Yi, L.1    Dong, N.2    Yun, Y.3    Deng, B.4    Ren, D.5    Liu, S.6
  • 52
    • 84953738781 scopus 로고    scopus 로고
    • Towards merging untargeted and targeted methods in mass spectrometry-based metabolomics and lipidomics
    • [52] Cajka, T., Fiehn, O., Towards merging untargeted and targeted methods in mass spectrometry-based metabolomics and lipidomics. Anal. Chem 88 (2015), 524–545, 10.1021/acs.analchem.5b04491.
    • (2015) Anal. Chem , vol.88 , pp. 524-545
    • Cajka, T.1    Fiehn, O.2
  • 53
    • 84953214393 scopus 로고    scopus 로고
    • A simultaneous metabolic profiling and quantitative multimetabolite metabolomic method for human plasma using gas-chromatography tandem mass spectrometry
    • accessed 20.01.16
    • [53] Savolainen, O.I., Sandberg, A.-S., Ross, A.B., A simultaneous metabolic profiling and quantitative multimetabolite metabolomic method for human plasma using gas-chromatography tandem mass spectrometry. http://pubs.acs.org/doi/10.1021/acs.jproteome.5b00790, 2015 accessed 20.01.16.
    • (2015)
    • Savolainen, O.I.1    Sandberg, A.-S.2    Ross, A.B.3
  • 54
    • 33745728711 scopus 로고    scopus 로고
    • MET-IDEA: data extraction tool for mass spectrometry-based metabolomics
    • [54] Broeckling, C.D., Reddy, I.R., Duran, A.L., Zhao, X., Sumner, L.W., MET-IDEA: data extraction tool for mass spectrometry-based metabolomics. Anal. Chem 78 (2006), 4334–4341, 10.1021/ac0521596.
    • (2006) Anal. Chem , vol.78 , pp. 4334-4341
    • Broeckling, C.D.1    Reddy, I.R.2    Duran, A.L.3    Zhao, X.4    Sumner, L.W.5
  • 55
    • 84878274712 scopus 로고    scopus 로고
    • MRMPROBS: a data assessment and metabolite identification tool for large-scale multiple reaction monitoring based widely targeted metabolomics
    • [55] Tsugawa, H., Arita, M., Kanazawa, M., Ogiwara, A., Bamba, T., Fukusaki, E., MRMPROBS: a data assessment and metabolite identification tool for large-scale multiple reaction monitoring based widely targeted metabolomics. Anal. Chem 85 (2013), 5191–5199, 10.1021/ac400515s.
    • (2013) Anal. Chem , vol.85 , pp. 5191-5199
    • Tsugawa, H.1    Arita, M.2    Kanazawa, M.3    Ogiwara, A.4    Bamba, T.5    Fukusaki, E.6
  • 56
    • 84906223658 scopus 로고    scopus 로고
    • MRMPROBS suite for metabolomics using large-scale MRM assays
    • [56] Tsugawa, H., Kanazawa, M., Ogiwara, A., Arita, M., MRMPROBS suite for metabolomics using large-scale MRM assays. Bioinformatics 30 (2014), 2379–2380, 10.1093/bioinformatics/btu203.
    • (2014) Bioinformatics , vol.30 , pp. 2379-2380
    • Tsugawa, H.1    Kanazawa, M.2    Ogiwara, A.3    Arita, M.4
  • 57
    • 84855396616 scopus 로고    scopus 로고
    • MMSAT: automated quantification of metabolites in selected reaction monitoring experiments
    • [57] Wong, J.W.H., Abuhusain, H.J., McDonald, K.L., Don, A.S., MMSAT: automated quantification of metabolites in selected reaction monitoring experiments. Anal. Chem 84 (2012), 470–474, 10.1021/ac2026578.
    • (2012) Anal. Chem , vol.84 , pp. 470-474
    • Wong, J.W.H.1    Abuhusain, H.J.2    McDonald, K.L.3    Don, A.S.4
  • 58
    • 57049144338 scopus 로고    scopus 로고
    • MRMer, an interactive open source and cross-platform system for data extraction and visualization of multiple reaction monitoring experiments
    • [58] Martin, D.B., Holzman, T., May, D., Peterson, A., Eastham, A., Eng, J., et al. MRMer, an interactive open source and cross-platform system for data extraction and visualization of multiple reaction monitoring experiments. Mol. Cell. Proteomics 7 (2008), 2270–2278, 10.1074/mcp.M700504-MCP200.
    • (2008) Mol. Cell. Proteomics , vol.7 , pp. 2270-2278
    • Martin, D.B.1    Holzman, T.2    May, D.3    Peterson, A.4    Eastham, A.5    Eng, J.6
  • 59
    • 77955072168 scopus 로고    scopus 로고
    • OpenChrom: a cross-platform open source software for the mass spectrometric analysis of chromatographic data
    • [59] Wenig, P., Odermatt, J., OpenChrom: a cross-platform open source software for the mass spectrometric analysis of chromatographic data. BMC Bioinformatics, 11, 2010, 405, 10.1186/1471-2105-11-405.
    • (2010) BMC Bioinformatics , vol.11 , pp. 405
    • Wenig, P.1    Odermatt, J.2
  • 60
    • 84876328919 scopus 로고    scopus 로고
    • Specific sphingolipid content decrease in Cerkl knockdown mouse retinas
    • [60] Garanto, A., Mandal, N.A., Egido-Gabás, M., Marfany, G., Fabriàs, G., Anderson, R.E., et al. Specific sphingolipid content decrease in Cerkl knockdown mouse retinas. Exp. Eye Res 110 (2013), 96–106, 10.1016/j.exer.2013.03.003.
    • (2013) Exp. Eye Res , vol.110 , pp. 96-106
    • Garanto, A.1    Mandal, N.A.2    Egido-Gabás, M.3    Marfany, G.4    Fabriàs, G.5    Anderson, R.E.6
  • 61
    • 84907443365 scopus 로고    scopus 로고
    • Characterization of complex lipid mixtures in contaminant exposed JEG-3 cells using liquid chromatography and high-resolution mass spectrometry
    • [61] Gorrochategui, E., Casas, J., Pérez-Albaladejo, E., Jáuregui, O., Porte, C., Lacorte, S., Characterization of complex lipid mixtures in contaminant exposed JEG-3 cells using liquid chromatography and high-resolution mass spectrometry. Environ. Sci. Pollut. Res. Int 21 (2014), 11907–11916, 10.1007/s11356-014-3172-5.
    • (2014) Environ. Sci. Pollut. Res. Int , vol.21 , pp. 11907-11916
    • Gorrochategui, E.1    Casas, J.2    Pérez-Albaladejo, E.3    Jáuregui, O.4    Porte, C.5    Lacorte, S.6
  • 62
    • 77956254902 scopus 로고    scopus 로고
    • The concept of spectral accuracy for MS
    • [62] Wang, Y., Gu, M., The concept of spectral accuracy for MS. Anal. Chem 82 (2010), 7055–7062, 10.1021/ac100888b.
    • (2010) Anal. Chem , vol.82 , pp. 7055-7062
    • Wang, Y.1    Gu, M.2
  • 63
    • 70349775820 scopus 로고    scopus 로고
    • Spectral accuracy of molecular ions in an LTQ/Orbitrap mass spectrometer and implications for elemental composition determination
    • [63] Erve, J.C.L., Gu, M., Wang, Y., DeMaio, W., Talaat, R.E., Spectral accuracy of molecular ions in an LTQ/Orbitrap mass spectrometer and implications for elemental composition determination. J. Am. Soc. Mass Spectrom 20 (2009), 2058–2069, 10.1016/j.jasms.2009.07.014.
    • (2009) J. Am. Soc. Mass Spectrom , vol.20 , pp. 2058-2069
    • Erve, J.C.L.1    Gu, M.2    Wang, Y.3    DeMaio, W.4    Talaat, R.E.5
  • 64
    • 84871290244 scopus 로고    scopus 로고
    • Identification of low molecular weight organic acids by ion chromatography/hybrid quadrupole time-of-flight mass spectrometry during Uniblu-A ozonation
    • [64] Amorisco, A., Locaputo, V., Pastore, C., Mascolo, G., Identification of low molecular weight organic acids by ion chromatography/hybrid quadrupole time-of-flight mass spectrometry during Uniblu-A ozonation. Rapid Commun. Mass Spectrom 27 (2013), 187–199, 10.1002/rcm.6429.
    • (2013) Rapid Commun. Mass Spectrom , vol.27 , pp. 187-199
    • Amorisco, A.1    Locaputo, V.2    Pastore, C.3    Mascolo, G.4
  • 66
    • 84957096258 scopus 로고    scopus 로고
    • Mass spectral databases for LC/MS and GC/MS-based metabolomics: state of the field and future prospects
    • [66] Vinaixa, M., Schymanski, E.L., Neumann, S., Navarro, M., Salek, R.M., Yanes, O., Mass spectral databases for LC/MS and GC/MS-based metabolomics: state of the field and future prospects. TrAC Trends Anal. Chem 78 (2015), 23–35, 10.1016/j.trac.2015.09.005.
    • (2015) TrAC Trends Anal. Chem , vol.78 , pp. 23-35
    • Vinaixa, M.1    Schymanski, E.L.2    Neumann, S.3    Navarro, M.4    Salek, R.M.5    Yanes, O.6
  • 67
    • 84907095098 scopus 로고    scopus 로고
    • Metabolite identification: are you sure? And how do your peers gauge your confidence?
    • [67] Creek, D.J., Dunn, W.B., Fiehn, O., Griffin, J.L., Hall, R.D., Lei, Z., et al. Metabolite identification: are you sure? And how do your peers gauge your confidence?. Metabolomics 10 (2014), 350–353, 10.1007/s11306-014-0656-8.
    • (2014) Metabolomics , vol.10 , pp. 350-353
    • Creek, D.J.1    Dunn, W.B.2    Fiehn, O.3    Griffin, J.L.4    Hall, R.D.5    Lei, Z.6
  • 68
    • 34748888866 scopus 로고    scopus 로고
    • Proposed minimum reporting standards for chemical analysis Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI)
    • [68] Sumner, L.W., Amberg, A., Barrett, D., Beale, M.H., Beger, R., Daykin, C.A., et al. Proposed minimum reporting standards for chemical analysis Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI). Metabolomics 3 (2007), 211–221, 10.1007/s11306-007-0082-2.
    • (2007) Metabolomics , vol.3 , pp. 211-221
    • Sumner, L.W.1    Amberg, A.2    Barrett, D.3    Beale, M.H.4    Beger, R.5    Daykin, C.A.6
  • 69
    • 48149097481 scopus 로고    scopus 로고
    • Implementing Council Directive 96/23/EC concerning the performance of analytical methods and the interpretation of results
    • vol 2002/657/EC
    • [69] European Communities (EC), Implementing Council Directive 96/23/EC concerning the performance of analytical methods and the interpretation of results. vol 2002/657/EC, 2002.
    • (2002)
    • European Communities (EC)1
  • 70
    • 0142043007 scopus 로고    scopus 로고
    • Simultaneous screening for 238 drugs in blood by liquid chromatography–ionspray tandem mass spectrometry with multiple-reaction monitoring
    • [70] Gergov, M., Ojanperä, I., Vuori, E., Simultaneous screening for 238 drugs in blood by liquid chromatography–ionspray tandem mass spectrometry with multiple-reaction monitoring. J. Chromatogr. B 795 (2003), 41–53, 10.1016/S1570-0232(03)00498-7.
    • (2003) J. Chromatogr. B , vol.795 , pp. 41-53
    • Gergov, M.1    Ojanperä, I.2    Vuori, E.3
  • 71
    • 33746606019 scopus 로고    scopus 로고
    • Separation and quantitation of water soluble cellular metabolites by hydrophilic interaction chromatography-tandem mass spectrometry
    • [71] Bajad, S.U., Lu, W., Kimball, E.H., Yuan, J., Peterson, C., Rabinowitz, J.D., Separation and quantitation of water soluble cellular metabolites by hydrophilic interaction chromatography-tandem mass spectrometry. J. Chromatogr. A 1125 (2006), 76–88, 10.1016/j.chroma.2006.05.019.
    • (2006) J. Chromatogr. A , vol.1125 , pp. 76-88
    • Bajad, S.U.1    Lu, W.2    Kimball, E.H.3    Yuan, J.4    Peterson, C.5    Rabinowitz, J.D.6
  • 72
    • 68049100110 scopus 로고    scopus 로고
    • Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli
    • [72] Bennett, B.D., Kimball, E.H., Gao, M., Osterhout, R., Van Dien, S.J., Rabinowitz, J.D., Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli. Nat. Chem. Biol 5 (2009), 593–599, 10.1038/nchembio.186.
    • (2009) Nat. Chem. Biol , vol.5 , pp. 593-599
    • Bennett, B.D.1    Kimball, E.H.2    Gao, M.3    Osterhout, R.4    Van Dien, S.J.5    Rabinowitz, J.D.6
  • 73
    • 77952985821 scopus 로고    scopus 로고
    • Ultrahigh performance liquid chromatography-tandem mass spectrometry method for fast and robust quantification of anionic and aromatic metabolites
    • [73] Buescher, J.M., Moco, S., Sauer, U., Zamboni, N., Ultrahigh performance liquid chromatography-tandem mass spectrometry method for fast and robust quantification of anionic and aromatic metabolites. Anal. Chem 82 (2010), 4403–4412, 10.1021/ac100101d.
    • (2010) Anal. Chem , vol.82 , pp. 4403-4412
    • Buescher, J.M.1    Moco, S.2    Sauer, U.3    Zamboni, N.4
  • 74
    • 33644874718 scopus 로고    scopus 로고
    • Metabolomic identification of novel biomarkers of myocardial ischemia
    • [74] Sabatine, M.S., Liu, E., Morrow, D.A., Heller, E., McCarroll, R., Wiegand, R., et al. Metabolomic identification of novel biomarkers of myocardial ischemia. Circulation 112 (2005), 3868–3875, 10.1161/CIRCULATIONAHA.105.569137.
    • (2005) Circulation , vol.112 , pp. 3868-3875
    • Sabatine, M.S.1    Liu, E.2    Morrow, D.A.3    Heller, E.4    McCarroll, R.5    Wiegand, R.6
  • 75
    • 79953737332 scopus 로고    scopus 로고
    • Metabolite profiles and the risk of developing diabetes
    • [75] Wang, T.J., Larson, M.G., Vasan, R.S., Cheng, S., Rhee, E.P., McCabe, E., et al. Metabolite profiles and the risk of developing diabetes. Nat. Med 17 (2011), 448–453, 10.1038/nm.2307.
    • (2011) Nat. Med , vol.17 , pp. 448-453
    • Wang, T.J.1    Larson, M.G.2    Vasan, R.S.3    Cheng, S.4    Rhee, E.P.5    McCabe, E.6
  • 76
    • 0029808148 scopus 로고    scopus 로고
    • Delayed extraction improves specificity in database searches by matrix-assisted laser desorption/ionization peptide maps
    • [76] Jensen, O.N., Podtelejnikov, A., Mann, M., Delayed extraction improves specificity in database searches by matrix-assisted laser desorption/ionization peptide maps. Rapid Commun. Mass Spectrom 10 (1996), 1371–1378, 10.1002/(SICI)1097-0231(199608)10:11<1371::AID-RCM682>3.0.CO;2-5.
    • (1996) Rapid Commun. Mass Spectrom , vol.10 , pp. 1371-1378
    • Jensen, O.N.1    Podtelejnikov, A.2    Mann, M.3
  • 77
    • 0141792463 scopus 로고    scopus 로고
    • Closely spaced external standard: a universal method of achieving 5 ppm mass accuracy over the entire MALDI plate in axial matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
    • [77] Moskovets, E., Chen, H.-S., Pashkova, A., Rejtar, T., Andreev, V., Karger, B.L., Closely spaced external standard: a universal method of achieving 5 ppm mass accuracy over the entire MALDI plate in axial matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. Rapid Commun. Mass Spectrom 17 (2003), 2177–2187, 10.1002/rcm.1158.
    • (2003) Rapid Commun. Mass Spectrom , vol.17 , pp. 2177-2187
    • Moskovets, E.1    Chen, H.-S.2    Pashkova, A.3    Rejtar, T.4    Andreev, V.5    Karger, B.L.6
  • 78
    • 84990642354 scopus 로고
    • High resolution accurate mass measurement of product ions formed in an electrospray source on a sector instrument
    • [78] Starrett, A.M., DiDonato, G.C., High resolution accurate mass measurement of product ions formed in an electrospray source on a sector instrument. Rapid Commun. Mass Spectrom 7 (1993), 12–15, 10.1002/rcm.1290070104.
    • (1993) Rapid Commun. Mass Spectrom , vol.7 , pp. 12-15
    • Starrett, A.M.1    DiDonato, G.C.2
  • 79
    • 34347405493 scopus 로고    scopus 로고
    • Data processing for mass spectrometry-based metabolomics
    • [79] Katajamaa, M., Oresic, M., Data processing for mass spectrometry-based metabolomics. J. Chromatogr. A 1158 (2007), 318–328, 10.1016/j.chroma.2007.04.021.
    • (2007) J. Chromatogr. A , vol.1158 , pp. 318-328
    • Katajamaa, M.1    Oresic, M.2
  • 80
    • 79959913950 scopus 로고    scopus 로고
    • Procedures for large-scale metabolic profiling of serum and plasma using gas chromatography and liquid chromatography coupled to mass spectrometry
    • [80] Dunn, W.B., Broadhurst, D., Begley, P., Zelena, E., Francis-McIntyre, S., Anderson, N., et al. Procedures for large-scale metabolic profiling of serum and plasma using gas chromatography and liquid chromatography coupled to mass spectrometry. Nat. Protoc 6 (2011), 1060–1083, 10.1038/nprot.2011.335.
    • (2011) Nat. Protoc , vol.6 , pp. 1060-1083
    • Dunn, W.B.1    Broadhurst, D.2    Begley, P.3    Zelena, E.4    Francis-McIntyre, S.5    Anderson, N.6
  • 81
    • 1442326111 scopus 로고    scopus 로고
    • MIRACLE: mass isotopomer ratio analysis of U-13C-labeled extracts. A new method for accurate quantification of changes in concentrations of intracellular metabolites
    • [81] Mashego, M.R., Wu, L., Van Dam, J.C., Ras, C., Vinke, J.L., Van Winden, W.A., et al. MIRACLE: mass isotopomer ratio analysis of U-13C-labeled extracts. A new method for accurate quantification of changes in concentrations of intracellular metabolites. Biotechnol. Bioeng 85 (2004), 620–628, 10.1002/bit.10907.
    • (2004) Biotechnol. Bioeng , vol.85 , pp. 620-628
    • Mashego, M.R.1    Wu, L.2    Van Dam, J.C.3    Ras, C.4    Vinke, J.L.5    Van Winden, W.A.6
  • 82
    • 11144324238 scopus 로고    scopus 로고
    • Quantitative analysis of the microbial metabolome by isotope dilution mass spectrometry using uniformly 13C-labeled cell extracts as internal standards
    • [82] Wu, L., Mashego, M.R., van Dam, J.C., Proell, A.M., Vinke, J.L., Ras, C., et al. Quantitative analysis of the microbial metabolome by isotope dilution mass spectrometry using uniformly 13C-labeled cell extracts as internal standards. Anal. Biochem 336 (2005), 164–171, 10.1016/j.ab.2004.09.001.
    • (2005) Anal. Biochem , vol.336 , pp. 164-171
    • Wu, L.1    Mashego, M.R.2    van Dam, J.C.3    Proell, A.M.4    Vinke, J.L.5    Ras, C.6
  • 83
    • 29844441918 scopus 로고    scopus 로고
    • A high-performance liquid chromatography-tandem mass spectrometry method for quantitation of nitrogen-containing intracellular metabolites
    • [83] Lu, W., Kimball, E., Rabinowitz, J.D., A high-performance liquid chromatography-tandem mass spectrometry method for quantitation of nitrogen-containing intracellular metabolites. J. Am. Soc. Mass Spectrom 17 (2006), 37–50, 10.1016/j.jasms.2005.09.001.
    • (2006) J. Am. Soc. Mass Spectrom , vol.17 , pp. 37-50
    • Lu, W.1    Kimball, E.2    Rabinowitz, J.D.3
  • 84
    • 33748878445 scopus 로고    scopus 로고
    • Kinetic flux profiling of nitrogen assimilation in Escherichia coli
    • [84] Yuan, J., Fowler, W.U., Kimball, E., Lu, W., Rabinowitz, J.D., Kinetic flux profiling of nitrogen assimilation in Escherichia coli. Nat. Chem. Biol 2 (2006), 529–530, 10.1038/nchembio816.
    • (2006) Nat. Chem. Biol , vol.2 , pp. 529-530
    • Yuan, J.1    Fowler, W.U.2    Kimball, E.3    Lu, W.4    Rabinowitz, J.D.5
  • 85
    • 34247192637 scopus 로고    scopus 로고
    • Isotope ratio-based profiling of microbial folates
    • [85] Lu, W., Kwon, Y.K., Rabinowitz, J.D., Isotope ratio-based profiling of microbial folates. J. Am. Soc. Mass Spectrom 18 (2007), 898–909, 10.1016/j.jasms.2007.01.017.
    • (2007) J. Am. Soc. Mass Spectrom , vol.18 , pp. 898-909
    • Lu, W.1    Kwon, Y.K.2    Rabinowitz, J.D.3
  • 86
    • 34548023950 scopus 로고    scopus 로고
    • Acidic acetonitrile for cellular metabolome extraction from Escherichia coli
    • [86] Rabinowitz, J.D., Kimball, E., Acidic acetonitrile for cellular metabolome extraction from Escherichia coli. Anal. Chem 79 (2007), 6167–6173, 10.1021/ac070470c.
    • (2007) Anal. Chem , vol.79 , pp. 6167-6173
    • Rabinowitz, J.D.1    Kimball, E.2
  • 87
    • 84936746107 scopus 로고    scopus 로고
    • Synthesis and use of stable-isotope-labeled internal standards for quantification of phosphorylated metabolites by LC-MS/MS
    • [87] Arrivault, S., Guenther, M., Fry, S.C., Fuenfgeld, M.M.F.F., Veyel, D., Mettler-Altmann, T., et al. Synthesis and use of stable-isotope-labeled internal standards for quantification of phosphorylated metabolites by LC-MS/MS. Anal. Chem 87 (2015), 6896–6904, 10.1021/acs.analchem.5b01387.
    • (2015) Anal. Chem , vol.87 , pp. 6896-6904
    • Arrivault, S.1    Guenther, M.2    Fry, S.C.3    Fuenfgeld, M.M.F.F.4    Veyel, D.5    Mettler-Altmann, T.6
  • 88
    • 30744460897 scopus 로고    scopus 로고
    • Large-scale human metabolomics studies: a strategy for data (pre-) processing and validation
    • [88] Bijlsma, S., Bobeldijk, I., Verheij, E.R., Ramaker, R., Kochhar, S., Macdonald, I.A., et al. Large-scale human metabolomics studies: a strategy for data (pre-) processing and validation. Anal. Chem 78 (2006), 567–574, 10.1021/ac051495j.
    • (2006) Anal. Chem , vol.78 , pp. 567-574
    • Bijlsma, S.1    Bobeldijk, I.2    Verheij, E.R.3    Ramaker, R.4    Kochhar, S.5    Macdonald, I.A.6
  • 89
    • 34347384910 scopus 로고    scopus 로고
    • Normalization method for metabolomics data using optimal selection of multiple internal standards
    • [89] Sysi-Aho, M., Katajamaa, M., Yetukuri, L., Oresic, M., Normalization method for metabolomics data using optimal selection of multiple internal standards. BMC Bioinformatics, 8, 2007, 93, 10.1186/1471-2105-8-93.
    • (2007) BMC Bioinformatics , vol.8 , pp. 93
    • Sysi-Aho, M.1    Katajamaa, M.2    Yetukuri, L.3    Oresic, M.4
  • 90
    • 84952902167 scopus 로고    scopus 로고
    • Comparing two metabolic profiling approaches (liquid chromatography and gas chromatography coupled to mass spectrometry) for extra-virgin olive oil phenolic compounds analysis: a botanical classification perspective
    • [90] Bajoub, A., Pacchiarotta, T., Hurtado-Fernández, E., Olmo-García, L., García-Villalba, R., Fernández-Gutiérrez, A., et al. Comparing two metabolic profiling approaches (liquid chromatography and gas chromatography coupled to mass spectrometry) for extra-virgin olive oil phenolic compounds analysis: a botanical classification perspective. J. Chromatogr. A 1428 (2016), 267–279, 10.1016/j.chroma.2015.10.059.
    • (2016) J. Chromatogr. A , vol.1428 , pp. 267-279
    • Bajoub, A.1    Pacchiarotta, T.2    Hurtado-Fernández, E.3    Olmo-García, L.4    García-Villalba, R.5    Fernández-Gutiérrez, A.6
  • 91
    • 84961202479 scopus 로고    scopus 로고
    • Metabolic profiling of Daphnia magna exposed to environmental stressors by GC–MS and chemometric tools
    • [91] Garreta-Lara, E., Campos, B., Barata, C., Lacorte, S., Tauler, R., Metabolic profiling of Daphnia magna exposed to environmental stressors by GC–MS and chemometric tools. Metabolomics, 12, 2016, 86, 10.1007/s11306-016-1021-x.
    • (2016) Metabolomics , vol.12 , pp. 86
    • Garreta-Lara, E.1    Campos, B.2    Barata, C.3    Lacorte, S.4    Tauler, R.5
  • 92
    • 35349005184 scopus 로고    scopus 로고
    • Five years of progress in the Standardization of Proteomics Data 4th Annual Spring Workshop of the HUPO-Proteomics Standards Initiative April 23–25, 2007 Ecole Nationale Supérieure (ENS), Lyon, France
    • [92] Orchard, S., Montechi-Palazzi, L., Deutsch, E.W., Binz, P.-A., Jones, A.R., Paton, N., et al. Five years of progress in the Standardization of Proteomics Data 4th Annual Spring Workshop of the HUPO-Proteomics Standards Initiative April 23–25, 2007 Ecole Nationale Supérieure (ENS), Lyon, France. Proteomics 7 (2007), 3436–3440, 10.1002/pmic.200700658.
    • (2007) Proteomics , vol.7 , pp. 3436-3440
    • Orchard, S.1    Montechi-Palazzi, L.2    Deutsch, E.W.3    Binz, P.-A.4    Jones, A.R.5    Paton, N.6
  • 94
    • 85020569458 scopus 로고    scopus 로고
    • Standard specification for analytical data interchange protocol for chromatographic data
    • accessed 19.01.16; n.d.
    • [94] ASTM E1947–98(2014), Standard specification for analytical data interchange protocol for chromatographic data. http://www.astm.org/Standards/E1947.htm, 2016 accessed 19.01.16; n.d.
    • (2016)
    • ASTM E1947–98(2014)1
  • 95
    • 0023861227 scopus 로고
    • JCAMP-DX: a standard form for exchange of infrared spectra in computer readable form
    • [95] McDonald, R.S., Wilks, P.A., JCAMP-DX: a standard form for exchange of infrared spectra in computer readable form. Appl. Spectrosc 42 (1988), 151–162, 10.1366/0003702884428734.
    • (1988) Appl. Spectrosc , vol.42 , pp. 151-162
    • McDonald, R.S.1    Wilks, P.A.2
  • 96
    • 84977875662 scopus 로고    scopus 로고
    • A protocol for LC-MS metabolomic data processing using chemometric tools
    • [96] Gorrochategui, E., Jaumot, J., Tauler, R., A protocol for LC-MS metabolomic data processing using chemometric tools. Protoc. Exch, 2015, 10.1038/protex.2015.102.
    • (2015) Protoc. Exch
    • Gorrochategui, E.1    Jaumot, J.2    Tauler, R.3
  • 97
    • 77449122863 scopus 로고    scopus 로고
    • Trans-proteomic pipeline: a pipeline for proteomic analysis
    • [97] Pedrioli, P.G.A., Trans-proteomic pipeline: a pipeline for proteomic analysis. Methods Mol. Biol 604 (2010), 213–238, 10.1007/978-1-60761-444-9_15.
    • (2010) Methods Mol. Biol , vol.604 , pp. 213-238
    • Pedrioli, P.G.A.1
  • 98
    • 54949129419 scopus 로고    scopus 로고
    • ProteoWizard: open source software for rapid proteomics tools development
    • [98] Kessner, D., Chambers, M., Burke, R., Agus, D., Mallick, P., ProteoWizard: open source software for rapid proteomics tools development. Bioinformatics 24 (2008), 2534–2536, 10.1093/bioinformatics/btn323.
    • (2008) Bioinformatics , vol.24 , pp. 2534-2536
    • Kessner, D.1    Chambers, M.2    Burke, R.3    Agus, D.4    Mallick, P.5
  • 99
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification
    • [99] Smith, C.A., Want, E.J., O'Maille, G., Abagyan, R., Siuzdak, G., XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. Anal. Chem 78 (2006), 779–787, 10.1021/ac051437y.
    • (2006) Anal. Chem , vol.78 , pp. 779-787
    • Smith, C.A.1    Want, E.J.2    O'Maille, G.3    Abagyan, R.4    Siuzdak, G.5
  • 100
    • 33344469496 scopus 로고    scopus 로고
    • A novel approach for nontargeted data analysis for metabolomics. Large-scale profiling of tomato fruit volatiles
    • [100] Tikunov, Y., Lommen, A., de Vos, C.H.R., Verhoeven, H.A., Bino, R.J., Hall, R.D., et al. A novel approach for nontargeted data analysis for metabolomics. Large-scale profiling of tomato fruit volatiles. Plant Physiol 139 (2005), 1125–1137, 10.1104/pp.105.068130.
    • (2005) Plant Physiol , vol.139 , pp. 1125-1137
    • Tikunov, Y.1    Lommen, A.2    de Vos, C.H.R.3    Verhoeven, H.A.4    Bino, R.J.5    Hall, R.D.6
  • 101
    • 33644867564 scopus 로고    scopus 로고
    • MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data
    • [101] Katajamaa, M., Miettinen, J., Oresic, M., MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data. Bioinformatics 22 (2006), 634–636, 10.1093/bioinformatics/btk039.
    • (2006) Bioinformatics , vol.22 , pp. 634-636
    • Katajamaa, M.1    Miettinen, J.2    Oresic, M.3
  • 102
    • 77954772536 scopus 로고    scopus 로고
    • MZmine 2: modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data
    • [102] Pluskal, T., Castillo, S., Villar-Briones, A., Oresic, M., MZmine 2: modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data. BMC Bioinformatics, 11, 2010, 395, 10.1186/1471-2105-11-395.
    • (2010) BMC Bioinformatics , vol.11 , pp. 395
    • Pluskal, T.1    Castillo, S.2    Villar-Briones, A.3    Oresic, M.4
  • 103
    • 75149136156 scopus 로고    scopus 로고
    • TargetSearch – a Bioconductor package for the efficient preprocessing of GC-MS metabolite profiling data
    • [103] Cuadros-Inostroza, A., Caldana, C., Redestig, H., Kusano, M., Lisec, J., Peña-Cortés, H., et al. TargetSearch – a Bioconductor package for the efficient preprocessing of GC-MS metabolite profiling data. BMC Bioinformatics, 10, 2009, 428, 10.1186/1471-2105-10-428.
    • (2009) BMC Bioinformatics , vol.10 , pp. 428
    • Cuadros-Inostroza, A.1    Caldana, C.2    Redestig, H.3    Kusano, M.4    Lisec, J.5    Peña-Cortés, H.6
  • 104
    • 84856104821 scopus 로고    scopus 로고
    • MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation
    • [104] Gatto, L., Lilley, K.S., MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation. Bioinformatics 28 (2011), 288–289, 10.1093/bioinformatics/btr645.
    • (2011) Bioinformatics , vol.28 , pp. 288-289
    • Gatto, L.1    Lilley, K.S.2
  • 105
  • 106
    • 79958165488 scopus 로고    scopus 로고
    • Multivariate curve resolution modeling of liquid chromatography-mass spectrometry data in a comparative study of the different endogenous metabolites behavior in two tomato cultivars treated with carbofuran pesticide
    • [106] Siano, G.G., Pérez, I.S., García, M.D.G., Galera, M.M., Goicoechea, H.C., Multivariate curve resolution modeling of liquid chromatography-mass spectrometry data in a comparative study of the different endogenous metabolites behavior in two tomato cultivars treated with carbofuran pesticide. Talanta 85 (2011), 264–275, 10.1016/j.talanta.2011.03.064.
    • (2011) Talanta , vol.85 , pp. 264-275
    • Siano, G.G.1    Pérez, I.S.2    García, M.D.G.3    Galera, M.M.4    Goicoechea, H.C.5
  • 107
    • 84939885420 scopus 로고    scopus 로고
    • Chemometric evaluation of Saccharomyces cerevisiae metabolic profiles using LC–MS
    • [107] Farrés, M., Piña, B., Tauler, R., Chemometric evaluation of Saccharomyces cerevisiae metabolic profiles using LC–MS. Metabolomics 11 (2014), 210–224, 10.1007/s11306-014-0689-z.
    • (2014) Metabolomics , vol.11 , pp. 210-224
    • Farrés, M.1    Piña, B.2    Tauler, R.3
  • 108
    • 84919362760 scopus 로고    scopus 로고
    • Chemometric strategy for untargeted lipidomics: biomarker detection and identification in stressed human placental cells
    • [108] Gorrochategui, E., Casas, J., Porte, C., Lacorte, S., Tauler, R., Chemometric strategy for untargeted lipidomics: biomarker detection and identification in stressed human placental cells. Anal. Chim. Acta 854 (2015), 20–33, 10.1016/j.aca.2014.11.010.
    • (2015) Anal. Chim. Acta , vol.854 , pp. 20-33
    • Gorrochategui, E.1    Casas, J.2    Porte, C.3    Lacorte, S.4    Tauler, R.5
  • 109
    • 84867341623 scopus 로고    scopus 로고
    • The importance of experimental design and QC samples in large-scale and MS-driven untargeted metabolomic studies of humans
    • [109] Dunn, W.B., Wilson, I.D., Nicholls, A.W., Broadhurst, D., The importance of experimental design and QC samples in large-scale and MS-driven untargeted metabolomic studies of humans. Bioanalysis 4 (2012), 2249–2264, 10.4155/bio.12.204.
    • (2012) Bioanalysis , vol.4 , pp. 2249-2264
    • Dunn, W.B.1    Wilson, I.D.2    Nicholls, A.W.3    Broadhurst, D.4
  • 110
    • 70449354965 scopus 로고    scopus 로고
    • Analytical error reduction using single point calibration for accurate and precise metabolomic phenotyping
    • [110] van der Kloet, F.M., Bobeldijk, I., Verheij, E.R., Jellema, R.H., Analytical error reduction using single point calibration for accurate and precise metabolomic phenotyping. J. Proteome Res 8 (2009), 5132–5141, 10.1021/pr900499r.
    • (2009) J. Proteome Res , vol.8 , pp. 5132-5141
    • van der Kloet, F.M.1    Bobeldijk, I.2    Verheij, E.R.3    Jellema, R.H.4
  • 111
  • 112
    • 84948799266 scopus 로고    scopus 로고
    • Common components and specific weights analysis: a tool for metabolomics data pre-processing
    • [112] Dubin, E., Spiteri, M., Dumas, A.-S., Ginet, J., Lees, M., Rutledge, D.N., Common components and specific weights analysis: a tool for metabolomics data pre-processing. Chemom. Intell. Lab 150 (2015), 41–50, 10.1016/j.chemolab.2015.11.005.
    • (2015) Chemom. Intell. Lab , vol.150 , pp. 41-50
    • Dubin, E.1    Spiteri, M.2    Dumas, A.-S.3    Ginet, J.4    Lees, M.5    Rutledge, D.N.6
  • 113
    • 4644240926 scopus 로고    scopus 로고
    • Metabolite fingerprinting: detecting biological features by independent component analysis
    • [113] Scholz, M., Gatzek, S., Sterling, A., Fiehn, O., Selbig, J., Metabolite fingerprinting: detecting biological features by independent component analysis. Bioinformatics 20 (2004), 2447–2454, 10.1093/bioinformatics/bth270.
    • (2004) Bioinformatics , vol.20 , pp. 2447-2454
    • Scholz, M.1    Gatzek, S.2    Sterling, A.3    Fiehn, O.4    Selbig, J.5
  • 114
    • 10744233766 scopus 로고    scopus 로고
    • Quantification of proteins and metabolites by mass spectrometry without isotopic labeling or spiked standards
    • [114] Wang, W., Zhou, H., Lin, H., Roy, S., Shaler, T.A., Hill, L.R., et al. Quantification of proteins and metabolites by mass spectrometry without isotopic labeling or spiked standards. Anal. Chem 75 (2003), 4818–4826, 10.1021/ac026468x.
    • (2003) Anal. Chem , vol.75 , pp. 4818-4826
    • Wang, W.1    Zhou, H.2    Lin, H.3    Roy, S.4    Shaler, T.A.5    Hill, L.R.6
  • 115
    • 33745728718 scopus 로고    scopus 로고
    • Probabilistic quotient normalization as robust method to account for dilution of complex biological mixtures. Application in 1H NMR metabonomics
    • [115] Dieterle, F., Ross, A., Schlotterbeck, G., Senn, H., Probabilistic quotient normalization as robust method to account for dilution of complex biological mixtures. Application in 1H NMR metabonomics. Anal. Chem 78 (2006), 4281–4290, 10.1021/ac051632c.
    • (2006) Anal. Chem , vol.78 , pp. 4281-4290
    • Dieterle, F.1    Ross, A.2    Schlotterbeck, G.3    Senn, H.4
  • 116
    • 33747019547 scopus 로고    scopus 로고
    • Centering, scaling, and transformations: improving the biological information content of metabolomics data
    • [116] van den Berg, R.A., Hoefsloot, H.C.J., Westerhuis, J.A., Smilde, A.K., van der Werf, M.J., Centering, scaling, and transformations: improving the biological information content of metabolomics data. BMC Genomics, 7, 2006, 142, 10.1186/1471-2164-7-142.
    • (2006) BMC Genomics , vol.7 , pp. 142
    • van den Berg, R.A.1    Hoefsloot, H.C.J.2    Westerhuis, J.A.3    Smilde, A.K.4    van der Werf, M.J.5
  • 117
    • 0002111499 scopus 로고
    • Scaling of analytical data
    • [117] Khalheim, O.M., Scaling of analytical data. Anal. Chim. Acta 177 (1985), 71–79, 10.1016/S0003-2670(00)82939-6.
    • (1985) Anal. Chim. Acta , vol.177 , pp. 71-79
    • Khalheim, O.M.1
  • 118
    • 0035473169 scopus 로고    scopus 로고
    • Pareto analysis in multiobjective optimization using the collinearity theorem and scaling method
    • [118] Kasprzak, E.M., Lewis, K.E., Pareto analysis in multiobjective optimization using the collinearity theorem and scaling method. Struct. Multidiscip. Optim 22 (2014), 208–218, 10.1007/s001580100138.
    • (2014) Struct. Multidiscip. Optim , vol.22 , pp. 208-218
    • Kasprzak, E.M.1    Lewis, K.E.2
  • 120
    • 0142102568 scopus 로고    scopus 로고
    • Improved analysis of multivariate data by variable stability scaling: application to NMR-based metabolic profiling
    • [120] Keun, H.C., Ebbels, T.M.D., Antti, H., Bollard, M.E., Beckonert, O., Holmes, E., et al. Improved analysis of multivariate data by variable stability scaling: application to NMR-based metabolic profiling. Anal. Chim. Acta 490 (2003), 265–276, 10.1016/S0003-2670(03)00094-1.
    • (2003) Anal. Chim. Acta , vol.490 , pp. 265-276
    • Keun, H.C.1    Ebbels, T.M.D.2    Antti, H.3    Bollard, M.E.4    Beckonert, O.5    Holmes, E.6
  • 121
    • 2942567927 scopus 로고    scopus 로고
    • Optimal scaling of TOF-SIMS spectrum-images prior to multivariate statistical analysis
    • [121] Keenan, M.R., Kotula, P.G., Optimal scaling of TOF-SIMS spectrum-images prior to multivariate statistical analysis. Appl. Surf. Sci 231–232 (2004), 240–244, 10.1016/j.apsusc.2004.03.025.
    • (2004) Appl. Surf. Sci , vol.231-232 , pp. 240-244
    • Keenan, M.R.1    Kotula, P.G.2
  • 122
    • 1842714914 scopus 로고    scopus 로고
    • Accounting for Poisson noise in the multivariate analysis of ToF-SIMS spectrum images
    • [122] Keenan, M.R., Kotula, P.G., Accounting for Poisson noise in the multivariate analysis of ToF-SIMS spectrum images. Surf. Interface Anal 36 (2004), 203–212, 10.1002/sia.1657.
    • (2004) Surf. Interface Anal , vol.36 , pp. 203-212
    • Keenan, M.R.1    Kotula, P.G.2
  • 123
    • 0002790345 scopus 로고
    • Preprocessing of analytical profiles in the presence of homoscedastic or heteroscedastic noise
    • [123] Kvalheim, O.M., Brakstad, F., Liang, Y., Preprocessing of analytical profiles in the presence of homoscedastic or heteroscedastic noise. Anal. Chem 66 (1994), 43–51, 10.1021/ac00073a010.
    • (1994) Anal. Chem , vol.66 , pp. 43-51
    • Kvalheim, O.M.1    Brakstad, F.2    Liang, Y.3
  • 124
    • 67849106535 scopus 로고    scopus 로고
    • MetaboAnalyst: a web server for metabolomic data analysis and interpretation
    • [124] Xia, J., Psychogios, N., Young, N., Wishart, D.S., MetaboAnalyst: a web server for metabolomic data analysis and interpretation. Nucleic Acids Res 37 (2009), W652–W660, 10.1093/nar/gkp356.
    • (2009) Nucleic Acids Res , vol.37 , pp. W652-W660
    • Xia, J.1    Psychogios, N.2    Young, N.3    Wishart, D.S.4
  • 125
    • 84864479791 scopus 로고    scopus 로고
    • MetaboAnalyst 2.0 – a comprehensive server for metabolomic data analysis
    • [125] Xia, J., Mandal, R., Sinelnikov, I.V., Broadhurst, D., Wishart, D.S., MetaboAnalyst 2.0 – a comprehensive server for metabolomic data analysis. Nucleic Acids Res 40 (2012), W127–W133, 10.1093/nar/gks374.
    • (2012) Nucleic Acids Res , vol.40 , pp. W127-W133
    • Xia, J.1    Mandal, R.2    Sinelnikov, I.V.3    Broadhurst, D.4    Wishart, D.S.5
  • 126
    • 84952896785 scopus 로고    scopus 로고
    • Sample normalization methods in quantitative metabolomics
    • [126] Wu, Y., Li, L., Sample normalization methods in quantitative metabolomics. J. Chromatogr. A 1430 (2016), 80–95, 10.1016/j.chroma.2015.12.007.
    • (2016) J. Chromatogr. A , vol.1430 , pp. 80-95
    • Wu, Y.1    Li, L.2
  • 127
    • 0028807247 scopus 로고
    • Multivariate curve resolution applied to second order data
    • [127] Tauler, R., Multivariate curve resolution applied to second order data. Chemom. Intell. Lab 30 (1995), 133–146, 10.1016/0169-7439(95)00047-X.
    • (1995) Chemom. Intell. Lab , vol.30 , pp. 133-146
    • Tauler, R.1
  • 128
    • 70449824286 scopus 로고    scopus 로고
    • Detection of unintended stress effects based on a metabonomic study in tomato fruits after treatment with carbofuran pesticide. Capabilities of MCR-ALS applied to LC-MS three-way data arrays
    • [128] Sánchez Pérez, I., Culzoni, M.J., Siano, G.G., Gil García, M.D., Goicoechea, H.C., Martínez Galera, M., Detection of unintended stress effects based on a metabonomic study in tomato fruits after treatment with carbofuran pesticide. Capabilities of MCR-ALS applied to LC-MS three-way data arrays. Anal. Chem 81 (2009), 8335–8346, 10.1021/ac901119h.
    • (2009) Anal. Chem , vol.81 , pp. 8335-8346
    • Sánchez Pérez, I.1    Culzoni, M.J.2    Siano, G.G.3    Gil García, M.D.4    Goicoechea, H.C.5    Martínez Galera, M.6
  • 129
    • 84873722674 scopus 로고    scopus 로고
    • Multivariate curve resolution: a review of advanced and tailored applications and challenges
    • [129] Ruckebusch, C., Blanchet, L., Multivariate curve resolution: a review of advanced and tailored applications and challenges. Anal. Chim. Acta 765 (2013), 28–36, 10.1016/j.aca.2012.12.028.
    • (2013) Anal. Chim. Acta , vol.765 , pp. 28-36
    • Ruckebusch, C.1    Blanchet, L.2
  • 130
    • 84903639214 scopus 로고    scopus 로고
    • Multivariate Curve Resolution (MCR). Solving the mixture analysis problem
    • [130] de Juan, A., Jaumot, J., Tauler, R., Multivariate Curve Resolution (MCR). Solving the mixture analysis problem. Anal. Methods, 6, 2014, 4964, 10.1039/c4ay00571f.
    • (2014) Anal. Methods , vol.6 , pp. 4964
    • de Juan, A.1    Jaumot, J.2    Tauler, R.3
  • 131
    • 84941261280 scopus 로고    scopus 로고
    • Combination of CE-MS and advanced chemometric methods for high-throughput metabolic profiling
    • [131] Ortiz-Villanueva, E., Jaumot, J., Benavente, F., Piña, B., Sanz-Nebot, V., Tauler, R., Combination of CE-MS and advanced chemometric methods for high-throughput metabolic profiling. Electrophoresis 36 (2015), 2324–2335, 10.1002/elps.201500027.
    • (2015) Electrophoresis , vol.36 , pp. 2324-2335
    • Ortiz-Villanueva, E.1    Jaumot, J.2    Benavente, F.3    Piña, B.4    Sanz-Nebot, V.5    Tauler, R.6
  • 132
    • 84947037595 scopus 로고    scopus 로고
    • Evaluation of changes induced in rice metabolome by Cd and Cu exposure using LC-MS with XCMS and MCR-ALS data analysis strategies
    • [132] Navarro-Reig, M., Jaumot, J., García-Reiriz, A., Tauler, R., Evaluation of changes induced in rice metabolome by Cd and Cu exposure using LC-MS with XCMS and MCR-ALS data analysis strategies. Anal. Bioanal. Chem 407 (2015), 8835–8847, 10.1007/s00216-015-9042-2.
    • (2015) Anal. Bioanal. Chem , vol.407 , pp. 8835-8847
    • Navarro-Reig, M.1    Jaumot, J.2    García-Reiriz, A.3    Tauler, R.4
  • 133
    • 84925390156 scopus 로고    scopus 로고
    • Phenotypic malignant changes and untargeted lipidomic analysis of long-term exposed prostate cancer cells to endocrine disruptors
    • [133] Bedia, C., Dalmau, N., Jaumot, J., Tauler, R., Phenotypic malignant changes and untargeted lipidomic analysis of long-term exposed prostate cancer cells to endocrine disruptors. Environ. Res 140 (2015), 18–31, 10.1016/j.envres.2015.03.014.
    • (2015) Environ. Res , vol.140 , pp. 18-31
    • Bedia, C.1    Dalmau, N.2    Jaumot, J.3    Tauler, R.4
  • 134
    • 62549154087 scopus 로고    scopus 로고
    • Retention time alignment algorithms for LC/MS data must consider non-linear shifts
    • [134] Podwojski, K., Fritsch, A., Chamrad, D.C., Paul, W., Sitek, B., Stuhler, K., et al. Retention time alignment algorithms for LC/MS data must consider non-linear shifts. Bioinformatics 25 (2009), 758–764, 10.1093/bioinformatics/btp052.
    • (2009) Bioinformatics , vol.25 , pp. 758-764
    • Podwojski, K.1    Fritsch, A.2    Chamrad, D.C.3    Paul, W.4    Sitek, B.5    Stuhler, K.6
  • 135
    • 33748490271 scopus 로고    scopus 로고
    • Chromatographic alignment of ESI-LC-MS proteomics data sets by ordered bijective interpolated warping
    • [135] Prince, J.T., Marcotte, E.M., Chromatographic alignment of ESI-LC-MS proteomics data sets by ordered bijective interpolated warping. Anal. Chem 78 (2006), 6140–6152, 10.1021/ac0605344.
    • (2006) Anal. Chem , vol.78 , pp. 6140-6152
    • Prince, J.T.1    Marcotte, E.M.2
  • 136
    • 0019574599 scopus 로고
    • Random sample consensus: a paradigm for model fitting with applications to image analysis and automated cartography
    • [136] Fischler, M.A., Bolles, R.C., Random sample consensus: a paradigm for model fitting with applications to image analysis and automated cartography. Commun. ACM 24 (1981), 381–395, 10.1145/358669.358692.
    • (1981) Commun. ACM , vol.24 , pp. 381-395
    • Fischler, M.A.1    Bolles, R.C.2
  • 137
    • 84877924842 scopus 로고    scopus 로고
    • Warping methods for spectroscopic and chromatographic signal alignment: a tutorial
    • [137] Bloemberg, T.G., Gerretzen, J., Lunshof, A., Wehrens, R., Buydens, L.M.C., Warping methods for spectroscopic and chromatographic signal alignment: a tutorial. Anal. Chim. Acta 781 (2013), 14–32, 10.1016/j.aca.2013.03.048.
    • (2013) Anal. Chim. Acta , vol.781 , pp. 14-32
    • Bloemberg, T.G.1    Gerretzen, J.2    Lunshof, A.3    Wehrens, R.4    Buydens, L.M.C.5
  • 138
    • 0001696295 scopus 로고    scopus 로고
    • A novel method to calculate the approximate derivative photoacoustic spectrum using continuous wavelet transform
    • [138] Shao, X., Pang, C., Su, Q., A novel method to calculate the approximate derivative photoacoustic spectrum using continuous wavelet transform. Fresenius. J. Anal. Chem 367 (2000), 525–529, 10.1007/s002160000404.
    • (2000) Fresenius. J. Anal. Chem , vol.367 , pp. 525-529
    • Shao, X.1    Pang, C.2    Su, Q.3
  • 139
    • 0030813663 scopus 로고    scopus 로고
    • PARAFAC tutorial and applications
    • [139] Bro, R., PARAFAC tutorial and applications. Chemom. Intell. Lab 38 (1997), 149–171, 10.1016/S0169-7439(97)00032-4.
    • (1997) Chemom. Intell. Lab , vol.38 , pp. 149-171
    • Bro, R.1
  • 140
    • 76749115209 scopus 로고    scopus 로고
    • Time-alignment of bidimensional chromatograms in the presence of uncalibrated interferences using parallel factor analysis
    • [140] Bortolato, S.A., Arancibia, J.A., Escandar, G.M., Olivieri, A.C., Time-alignment of bidimensional chromatograms in the presence of uncalibrated interferences using parallel factor analysis. Chemom. Intell. Lab 101 (2010), 30–37, 10.1016/j.chemolab.2009.12.001.
    • (2010) Chemom. Intell. Lab , vol.101 , pp. 30-37
    • Bortolato, S.A.1    Arancibia, J.A.2    Escandar, G.M.3    Olivieri, A.C.4
  • 141
    • 0001718376 scopus 로고    scopus 로고
    • PARAFAC2 – Part I. A direct fitting algorithm for the PARAFAC2 model
    • [141] Kiers, H.A.L., Ten Berge, J.M.F., Bro, R., PARAFAC2 – Part I. A direct fitting algorithm for the PARAFAC2 model. J. Chemometrics 13 (1999), 275–294 http://www.scopus.com/inward/record.url?eid=2-s2.0-0001718376&partnerID=tZOtx3y1.
    • (1999) J. Chemometrics , vol.13 , pp. 275-294
    • Kiers, H.A.L.1    Ten Berge, J.M.F.2    Bro, R.3
  • 142
    • 0000095845 scopus 로고    scopus 로고
    • PARAFAC2 – Part II. Modeling chromatographic data with retention time shifts
    • [142] Bro, R., Andersson, C.A., Kiers, H.A.L., PARAFAC2 – Part II. Modeling chromatographic data with retention time shifts. J. Chemometrics 13 (1999), 295–309 http://www.scopus.com/inward/record.url?eid=2-s2.0-0000095845&partnerID=tZOtx3y1.
    • (1999) J. Chemometrics , vol.13 , pp. 295-309
    • Bro, R.1    Andersson, C.A.2    Kiers, H.A.L.3
  • 143
    • 84868383278 scopus 로고    scopus 로고
    • Plant metabolomics: resolution and quantification of elusive peaks in liquid chromatography-mass spectrometry profiles of complex plant extracts using multi-way decomposition methods
    • [143] Khakimov, B., Amigo, J.M., Bak, S., Engelsen, S.B., Plant metabolomics: resolution and quantification of elusive peaks in liquid chromatography-mass spectrometry profiles of complex plant extracts using multi-way decomposition methods. J. Chromatogr. A 1266 (2012), 84–94, 10.1016/j.chroma.2012.10.023.
    • (2012) J. Chromatogr. A , vol.1266 , pp. 84-94
    • Khakimov, B.1    Amigo, J.M.2    Bak, S.3    Engelsen, S.B.4
  • 144
    • 84905898433 scopus 로고    scopus 로고
    • Chemometric processing of second-order liquid chromatographic data with UV-vis and fluorescence detection. A comparison of multivariate curve resolution and parallel factor analysis 2
    • [144] Bortolato, S.A., Olivieri, A.C., Chemometric processing of second-order liquid chromatographic data with UV-vis and fluorescence detection. A comparison of multivariate curve resolution and parallel factor analysis 2. Anal. Chim. Acta 842 (2014), 11–19, 10.1016/j.aca.2014.07.007.
    • (2014) Anal. Chim. Acta , vol.842 , pp. 11-19
    • Bortolato, S.A.1    Olivieri, A.C.2
  • 145
    • 0028416938 scopus 로고
    • Independent component analysis, A new concept?
    • [145] Comon, P., Independent component analysis, A new concept?. Signal Process 36 (1994), 287–314, 10.1016/0165-1684(94)90029-9.
    • (1994) Signal Process , vol.36 , pp. 287-314
    • Comon, P.1
  • 146
    • 84155165591 scopus 로고    scopus 로고
    • Is independent component analysis appropriate for multivariate resolution in analytical chemistry?
    • [146] Parastar, H., Jalali-Heravi, M., Tauler, R., Is independent component analysis appropriate for multivariate resolution in analytical chemistry?. TrAC Trends Anal. Chem 31 (2012), 134–143, 10.1016/j.trac.2011.07.010.
    • (2012) TrAC Trends Anal. Chem , vol.31 , pp. 134-143
    • Parastar, H.1    Jalali-Heravi, M.2    Tauler, R.3
  • 147
    • 84939791389 scopus 로고    scopus 로고
    • Measuring and comparing the resolution performance and the extent of rotation ambiguities of some bilinear modeling methods
    • [147] Zhang, X., Tauler, R., Measuring and comparing the resolution performance and the extent of rotation ambiguities of some bilinear modeling methods. Chemom. Intell. Lab 147 (2015), 47–57, 10.1016/j.chemolab.2015.08.005.
    • (2015) Chemom. Intell. Lab , vol.147 , pp. 47-57
    • Zhang, X.1    Tauler, R.2
  • 148
    • 0001387715 scopus 로고    scopus 로고
    • Mean-field approaches to independent component analysis
    • [148] Højen-Sørensen, P.A., Winther, O., Hansen, L.K., Mean-field approaches to independent component analysis. Neural Comput 14 (2002), 889–918, 10.1162/089976602317319009.
    • (2002) Neural Comput , vol.14 , pp. 889-918
    • Højen-Sørensen, P.A.1    Winther, O.2    Hansen, L.K.3
  • 149
    • 84959301262 scopus 로고    scopus 로고
    • MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics
    • [149] Liu, Y., Smirnov, K., Lucio, M., Gougeon, R.D., Alexandre, H., Schmitt-Kopplin, P., MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics. BMC Bioinformatics, 17, 2016, 114, 10.1186/s12859-016-0970-4.
    • (2016) BMC Bioinformatics , vol.17 , pp. 114
    • Liu, Y.1    Smirnov, K.2    Lucio, M.3    Gougeon, R.D.4    Alexandre, H.5    Schmitt-Kopplin, P.6
  • 150
    • 33846240326 scopus 로고    scopus 로고
    • Statistical strategies for avoiding false discoveries in metabolomics and related experiments
    • [150] Broadhurst, D.I., Kell, D.B., Statistical strategies for avoiding false discoveries in metabolomics and related experiments. Metabolomics 2 (2006), 171–196, 10.1007/s11306-006-0037-z.
    • (2006) Metabolomics , vol.2 , pp. 171-196
    • Broadhurst, D.I.1    Kell, D.B.2
  • 151
    • 39749116792 scopus 로고    scopus 로고
    • Comparison of some chemometric tools for metabonomics biomarker identification
    • [151] Rousseau, R., Govaerts, B., Verleysen, M., Boulanger, B., Comparison of some chemometric tools for metabonomics biomarker identification. Chemom. Intell. Lab 91 (2008), 54–66, 10.1016/j.chemolab.2007.06.008.
    • (2008) Chemom. Intell. Lab , vol.91 , pp. 54-66
    • Rousseau, R.1    Govaerts, B.2    Verleysen, M.3    Boulanger, B.4
  • 152
    • 84875552323 scopus 로고    scopus 로고
    • Translational biomarker discovery in clinical metabolomics: an introductory tutorial
    • [152] Xia, J., Broadhurst, D.I., Wilson, M., Wishart, D.S., Translational biomarker discovery in clinical metabolomics: an introductory tutorial. Metabolomics 9 (2013), 280–299, 10.1007/s11306-012-0482-9.
    • (2013) Metabolomics , vol.9 , pp. 280-299
    • Xia, J.1    Broadhurst, D.I.2    Wilson, M.3    Wishart, D.S.4
  • 153
    • 84926391432 scopus 로고    scopus 로고
    • The extent and consequences of P-hacking in science
    • e1002106
    • [153] Head, M.L., Holman, L., Lanfear, R., Kahn, A.T., Jennions, M.D., The extent and consequences of P-hacking in science. PLoS Biol, 13, 2015, 10.1371/journal.pbio.1002106 e1002106.
    • (2015) PLoS Biol , vol.13
    • Head, M.L.1    Holman, L.2    Lanfear, R.3    Kahn, A.T.4    Jennions, M.D.5
  • 154
    • 45949123735 scopus 로고
    • Principal component analysis
    • [154] Wold, S., Esbensen, K., Geladi, P., Principal component analysis. Chemom. Intell. Lab 2 (1987), 37–52, 10.1016/0169-7439(87)80084-9.
    • (1987) Chemom. Intell. Lab , vol.2 , pp. 37-52
    • Wold, S.1    Esbensen, K.2    Geladi, P.3
  • 155
    • 0037350844 scopus 로고    scopus 로고
    • Partial least squares for discrimination
    • [155] Barker, M., Rayens, W., Partial least squares for discrimination. J. Chemometrics 17 (2003), 166–173, 10.1002/cem.785.
    • (2003) J. Chemometrics , vol.17 , pp. 166-173
    • Barker, M.1    Rayens, W.2
  • 156
    • 84979653612 scopus 로고    scopus 로고
    • Logistic regression for correlated binary data
    • accessed 19.01.16; n.d.
    • [156] Le Cessie, S., Van Houwelingen, J.C., Logistic regression for correlated binary data. http://www.jstor.org/stable/2986114?seq=1#page_scan_tab_contents, 2016 accessed 19.01.16; n.d.
    • (2016)
    • Le Cessie, S.1    Van Houwelingen, J.C.2
  • 157
    • 0003802343 scopus 로고
    • Classification and regression trees, Belmont, CA
    • [157] Breiman, C.S.L.J., Freidman, R., Olsen, R., Classification and regression trees, Belmont, CA. 1984.
    • (1984)
    • Breiman, C.S.L.J.1    Freidman, R.2    Olsen, R.3
  • 158
    • 57649155791 scopus 로고    scopus 로고
    • Biomarker discovery in mass spectral profiles by means of selectivity ratio plot
    • [158] Rajalahti, T., Arneberg, R., Berven, F.S., Myhr, K.-M., Ulvik, R.J., Kvalheim, O.M., Biomarker discovery in mass spectral profiles by means of selectivity ratio plot. Chemom. Intell. Lab 95 (2009), 35–48, 10.1016/j.chemolab.2008.08.004.
    • (2009) Chemom. Intell. Lab , vol.95 , pp. 35-48
    • Rajalahti, T.1    Arneberg, R.2    Berven, F.S.3    Myhr, K.-M.4    Ulvik, R.J.5    Kvalheim, O.M.6
  • 159
    • 64849110688 scopus 로고    scopus 로고
    • Discriminating variable test and selectivity ratio plot: quantitative tools for interpretation and variable (biomarker) selection in complex spectral or chromatographic profiles
    • [159] Rajalahti, T., Arneberg, R., Kroksveen, A.C., Berle, M., Myhr, K.-M., Kvalheim, O.M., Discriminating variable test and selectivity ratio plot: quantitative tools for interpretation and variable (biomarker) selection in complex spectral or chromatographic profiles. Anal. Chem 81 (2009), 2581–2590, 10.1021/ac802514y.
    • (2009) Anal. Chem , vol.81 , pp. 2581-2590
    • Rajalahti, T.1    Arneberg, R.2    Kroksveen, A.C.3    Berle, M.4    Myhr, K.-M.5    Kvalheim, O.M.6
  • 160
    • 0035965476 scopus 로고    scopus 로고
    • PLS-regression: a basic tool of chemometrics
    • [160] Wold, S., Sjöström, M., Eriksson, L., PLS-regression: a basic tool of chemometrics. Chemom. Intell. Lab 58 (2001), 109–130, 10.1016/S0169-7439(01)00155-1.
    • (2001) Chemom. Intell. Lab , vol.58 , pp. 109-130
    • Wold, S.1    Sjöström, M.2    Eriksson, L.3
  • 161
    • 21444443325 scopus 로고    scopus 로고
    • ANOVA-simultaneous component analysis (ASCA): a new tool for analyzing designed metabolomics data
    • [161] Smilde, A.K., Jansen, J.J., Hoefsloot, H.C.J., Lamers, R.-J.A.N., van der Greef, J., Timmerman, M.E., ANOVA-simultaneous component analysis (ASCA): a new tool for analyzing designed metabolomics data. Bioinformatics 21 (2005), 3043–3048, 10.1093/bioinformatics/bti476.
    • (2005) Bioinformatics , vol.21 , pp. 3043-3048
    • Smilde, A.K.1    Jansen, J.J.2    Hoefsloot, H.C.J.3    Lamers, R.-J.A.N.4    van der Greef, J.5    Timmerman, M.E.6
  • 163
    • 21244436700 scopus 로고    scopus 로고
    • Performance of some variable selection methods when multicollinearity is present
    • [163] Chong, I.-G., Jun, C.-H., Performance of some variable selection methods when multicollinearity is present. Chemom. Intell. Lab 78 (2005), 103–112, 10.1016/j.chemolab.2004.12.011.
    • (2005) Chemom. Intell. Lab , vol.78 , pp. 103-112
    • Chong, I.-G.1    Jun, C.-H.2
  • 164
    • 71549117923 scopus 로고    scopus 로고
    • A Bootstrap-VIP approach for selecting wavelength intervals in spectral imaging applications
    • [164] Gosselin, R., Rodrigue, D., Duchesne, C., A Bootstrap-VIP approach for selecting wavelength intervals in spectral imaging applications. Chemom. Intell. Lab 100 (2010), 12–21, 10.1016/j.chemolab.2009.09.005.
    • (2010) Chemom. Intell. Lab , vol.100 , pp. 12-21
    • Gosselin, R.1    Rodrigue, D.2    Duchesne, C.3
  • 165
    • 84943366974 scopus 로고    scopus 로고
    • Comparison of the variable importance in projection (VIP) and of the selectivity ratio (SR) methods for variable selection and interpretation
    • [165] Farrés, M., Platikanov, S., Tsakovski, S., Tauler, R., Comparison of the variable importance in projection (VIP) and of the selectivity ratio (SR) methods for variable selection and interpretation. J. Chemometrics 29 (2015), 528–536, 10.1002/cem.2736.
    • (2015) J. Chemometrics , vol.29 , pp. 528-536
    • Farrés, M.1    Platikanov, S.2    Tsakovski, S.3    Tauler, R.4
  • 166
    • 84952877382 scopus 로고    scopus 로고
    • Lipidomic data analysis: tutorial, practical guidelines and applications
    • [166] Checa, A., Bedia, C., Jaumot, J., Lipidomic data analysis: tutorial, practical guidelines and applications. Anal. Chim. Acta 885 (2015), 1–16, 10.1016/j.aca.2015.02.068.
    • (2015) Anal. Chim. Acta , vol.885 , pp. 1-16
    • Checa, A.1    Bedia, C.2    Jaumot, J.3
  • 167
    • 78650649260 scopus 로고    scopus 로고
    • Variable selection in regression-a tutorial
    • [167] Andersen, C.M., Bro, R., Variable selection in regression-a tutorial. J. Chemometrics 24 (2010), 728–737, 10.1002/cem.1360.
    • (2010) J. Chemometrics , vol.24 , pp. 728-737
    • Andersen, C.M.1    Bro, R.2
  • 168
    • 0003784909 scopus 로고    scopus 로고
    • Permutation Methods: A Distance Function Approach
    • Springer New York
    • [168] Mielke, K.J., Berry, P.W. Jr., Permutation Methods: A Distance Function Approach. 2001, Springer, New York.
    • (2001)
    • Mielke, K.J.1    Berry, P.W.2
  • 169
    • 0037245343 scopus 로고    scopus 로고
    • Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification
    • [169] Simon, R., Radmacher, M.D., Dobbin, K., McShane, L.M., Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification. J. Natl. Cancer Inst 95 (2003), 14–18 http://www.scopus.com/inward/record.url?eid=2-s2.0-0037245343&partnerID=tZOtx3y1.
    • (2003) J. Natl. Cancer Inst , vol.95 , pp. 14-18
    • Simon, R.1    Radmacher, M.D.2    Dobbin, K.3    McShane, L.M.4
  • 170
    • 0037076322 scopus 로고    scopus 로고
    • Selection bias in gene extraction on the basis of microarray gene-expression data
    • [170] Ambroise, C., McLachlan, G.J., Selection bias in gene extraction on the basis of microarray gene-expression data. Proc. Natl. Acad. Sci. U.S.A. 99 (2002), 6562–6566, 10.1073/pnas.102102699.
    • (2002) Proc. Natl. Acad. Sci. U.S.A. , vol.99 , pp. 6562-6566
    • Ambroise, C.1    McLachlan, G.J.2
  • 172
    • 0003991665 scopus 로고
    • An Introduction to the Bootstrap
    • Chapman and Hall New York
    • [172] Bradley, E., Tibshirani, R.J., An Introduction to the Bootstrap. 1993, Chapman and Hall, New York.
    • (1993)
    • Bradley, E.1    Tibshirani, R.J.2
  • 173
    • 84941934780 scopus 로고    scopus 로고
    • Validation of chemometric models – a tutorial
    • [173] Westad, F., Marini, F., Validation of chemometric models – a tutorial. Anal. Chim. Acta 893 (2015), 14–24, 10.1016/j.aca.2015.06.056.
    • (2015) Anal. Chim. Acta , vol.893 , pp. 14-24
    • Westad, F.1    Marini, F.2
  • 174
    • 76349111180 scopus 로고    scopus 로고
    • Partial least squares regression and projection on latent structure regression (PLS Regression)
    • [174] Abdi, H., Partial least squares regression and projection on latent structure regression (PLS Regression). Wiley Interdiscip. Rev. Comput. Stat 2 (2010), 97–106, 10.1002/wics.51.
    • (2010) Wiley Interdiscip. Rev. Comput. Stat , vol.2 , pp. 97-106
    • Abdi, H.1
  • 175
    • 79951861339 scopus 로고    scopus 로고
    • On estimating model complexity and prediction errors in multivariate calibration: generalized resampling by random sample weighting (RSW)
    • [175] Xu, L., Xu, Q.-S., Yang, M., Zhang, H.-Z., Cai, C.-B., Jiang, J.-H., et al. On estimating model complexity and prediction errors in multivariate calibration: generalized resampling by random sample weighting (RSW). J. Chemometrics 25 (2011), 51–58, 10.1002/cem.1323.
    • (2011) J. Chemometrics , vol.25 , pp. 51-58
    • Xu, L.1    Xu, Q.-S.2    Yang, M.3    Zhang, H.-Z.4    Cai, C.-B.5    Jiang, J.-H.6
  • 176
    • 84875087248 scopus 로고    scopus 로고
    • Use of the bootstrap and permutation methods for a more robust variable importance in the projection metric for partial least squares regression
    • [176] Afanador, N.L., Tran, T.N., Buydens, L.M.C., Use of the bootstrap and permutation methods for a more robust variable importance in the projection metric for partial least squares regression. Anal. Chim. Acta 768 (2013), 49–56, 10.1016/j.aca.2013.01.004.
    • (2013) Anal. Chim. Acta , vol.768 , pp. 49-56
    • Afanador, N.L.1    Tran, T.N.2    Buydens, L.M.C.3
  • 177
    • 84874345577 scopus 로고    scopus 로고
    • Mass appeal: metabolite identification in mass spectrometry-focused untargeted metabolomics
    • [177] Dunn, W.B., Erban, A., Weber, R.J.M., Creek, D.J., Brown, M., Breitling, R., et al. Mass appeal: metabolite identification in mass spectrometry-focused untargeted metabolomics. Metabolomics 9 (2012), 44–66, 10.1007/s11306-012-0434-4.
    • (2012) Metabolomics , vol.9 , pp. 44-66
    • Dunn, W.B.1    Erban, A.2    Weber, R.J.M.3    Creek, D.J.4    Brown, M.5    Breitling, R.6
  • 178
    • 84953734355 scopus 로고    scopus 로고
    • Comparative UPLC-QTOF-MS-based metabolomics and bioactivities analyses of Garcinia oblongifolia
    • [178] Li, P., Senthilkumar, H.A., Wu, S.-B., Liu, B., Guo, Z., Fata, J.E., et al. Comparative UPLC-QTOF-MS-based metabolomics and bioactivities analyses of Garcinia oblongifolia. J. Chromatogr. B 1011 (2016), 179–195, 10.1016/j.jchromb.2015.12.061.
    • (2016) J. Chromatogr. B , vol.1011 , pp. 179-195
    • Li, P.1    Senthilkumar, H.A.2    Wu, S.-B.3    Liu, B.4    Guo, Z.5    Fata, J.E.6
  • 179
    • 33646743247 scopus 로고    scopus 로고
    • Nonlinear data alignment for UPLC-MS and HPLC-MS based metabolomics: quantitative analysis of endogenous and exogenous metabolites in human serum
    • [179] Nordström, A., O'Maille, G., Qin, C., Siuzdak, G., Nonlinear data alignment for UPLC-MS and HPLC-MS based metabolomics: quantitative analysis of endogenous and exogenous metabolites in human serum. Anal. Chem 78 (2006), 3289–3295, 10.1021/ac060245f.
    • (2006) Anal. Chem , vol.78 , pp. 3289-3295
    • Nordström, A.1    O'Maille, G.2    Qin, C.3    Siuzdak, G.4
  • 180
    • 33846964551 scopus 로고    scopus 로고
    • Molecular formula analysis by an MS/MS/MS technique to expedite dereplication of natural products
    • [180] Konishi, Y., Kiyota, T., Draghici, C., Gao, J.-M., Yeboah, F., Acoca, S., et al. Molecular formula analysis by an MS/MS/MS technique to expedite dereplication of natural products. Anal. Chem 79 (2007), 1187–1197, 10.1021/ac061391o.
    • (2007) Anal. Chem , vol.79 , pp. 1187-1197
    • Konishi, Y.1    Kiyota, T.2    Draghici, C.3    Gao, J.-M.4    Yeboah, F.5    Acoca, S.6
  • 181
    • 25144468977 scopus 로고    scopus 로고
    • “All-in-one” analysis for metabolite identification using liquid chromatography/hybrid quadrupole time-of-flight mass spectrometry with collision energy switching
    • [181] Wrona, M., Mauriala, T., Bateman, K.P., Mortishire-Smith, R.J., O'Connor, D., “All-in-one” analysis for metabolite identification using liquid chromatography/hybrid quadrupole time-of-flight mass spectrometry with collision energy switching. Rapid Commun. Mass Spectrom 19 (2005), 2597–2602, 10.1002/rcm.2101.
    • (2005) Rapid Commun. Mass Spectrom , vol.19 , pp. 2597-2602
    • Wrona, M.1    Mauriala, T.2    Bateman, K.P.3    Mortishire-Smith, R.J.4    O'Connor, D.5
  • 182
    • 84897083718 scopus 로고    scopus 로고
    • UPLC-MS(E) application in disease biomarker discovery: the discoveries in proteomics to metabolomics
    • [182] Zhao, Y.-Y., Lin, R.-C., UPLC-MS(E) application in disease biomarker discovery: the discoveries in proteomics to metabolomics. Chem. Biol. Interact 215 (2014), 7–16, 10.1016/j.cbi.2014.02.014.
    • (2014) Chem. Biol. Interact , vol.215 , pp. 7-16
    • Zhao, Y.-Y.1    Lin, R.-C.2
  • 183
    • 84858983547 scopus 로고    scopus 로고
    • KEGG for integration and interpretation of large-scale molecular data sets
    • [183] Kanehisa, M., Goto, S., Sato, Y., Furumichi, M., Tanabe, M., KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res 40 (2012), D109–D114, 10.1093/nar/gkr988.
    • (2012) Nucleic Acids Res , vol.40 , pp. D109-D114
    • Kanehisa, M.1    Goto, S.2    Sato, Y.3    Furumichi, M.4    Tanabe, M.5
  • 184
    • 27244436714 scopus 로고    scopus 로고
    • Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
    • [184] Karp, P.D., Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Res 33 (2005), 6083–6089, 10.1093/nar/gki892.
    • (2005) Nucleic Acids Res , vol.33 , pp. 6083-6089
    • Karp, P.D.1
  • 185
    • 33644877904 scopus 로고    scopus 로고
    • MetaCyc: a multiorganism database of metabolic pathways and enzymes
    • [185] Caspi, R., MetaCyc: a multiorganism database of metabolic pathways and enzymes. Nucleic Acids Res 34 (2006), D511–D516, 10.1093/nar/gkj128.
    • (2006) Nucleic Acids Res , vol.34 , pp. D511-D516
    • Caspi, R.1
  • 188
    • 84943621062 scopus 로고    scopus 로고
    • A metabolomic study using HPLC-TOF/MS coupled with ingenuity pathway analysis: intervention effects of Rhizoma Alismatis on spontaneous hypertensive rats
    • [188] Chu, Y., Jiang, H., Ju, J., Li, Y., Gong, L., Wang, X., et al. A metabolomic study using HPLC-TOF/MS coupled with ingenuity pathway analysis: intervention effects of Rhizoma Alismatis on spontaneous hypertensive rats. J. Pharm. Biomed. Anal 117 (2016), 446–452, 10.1016/j.jpba.2015.09.026.
    • (2016) J. Pharm. Biomed. Anal , vol.117 , pp. 446-452
    • Chu, Y.1    Jiang, H.2    Ju, J.3    Li, Y.4    Gong, L.5    Wang, X.6
  • 189
    • 84941022225 scopus 로고    scopus 로고
    • Comprehensive metabolome analyses reveal N-acetylcysteine-responsive accumulation of kynurenine in systemic lupus erythematosus: implications for activation of the mechanistic target of rapamycin
    • [189] Perl, A., Hanczko, R., Lai, Z.-W., Oaks, Z., Kelly, R., Borsuk, R., et al. Comprehensive metabolome analyses reveal N-acetylcysteine-responsive accumulation of kynurenine in systemic lupus erythematosus: implications for activation of the mechanistic target of rapamycin. Metabolomics 11 (2015), 1157–1174, 10.1007/s11306-015-0772-0.
    • (2015) Metabolomics , vol.11 , pp. 1157-1174
    • Perl, A.1    Hanczko, R.2    Lai, Z.-W.3    Oaks, Z.4    Kelly, R.5    Borsuk, R.6
  • 190
    • 84905724689 scopus 로고    scopus 로고
    • Comparative evaluation of preprocessing freeware on chromatography/mass spectrometry data for signature discovery
    • [190] Coble, J.B., Fraga, C.G., Comparative evaluation of preprocessing freeware on chromatography/mass spectrometry data for signature discovery. J. Chromatogr. A 1358 (2014), 155–164, 10.1016/j.chroma.2014.06.100.
    • (2014) J. Chromatogr. A , vol.1358 , pp. 155-164
    • Coble, J.B.1    Fraga, C.G.2
  • 191
    • 0037452966 scopus 로고    scopus 로고
    • Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms
    • [191] Alter, O., Brown, P.O., Botstein, D., Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms. Proc. Natl. Acad. Sci. U.S.A. 100 (2003), 3351–3356, 10.1073/pnas.0530258100.
    • (2003) Proc. Natl. Acad. Sci. U.S.A. , vol.100 , pp. 3351-3356
    • Alter, O.1    Brown, P.O.2    Botstein, D.3
  • 192
    • 36949021555 scopus 로고    scopus 로고
    • Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data
    • [192] Bylesjö, M., Eriksson, D., Kusano, M., Moritz, T., Trygg, J., Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data. Plant J. 52 (2007), 1181–1191, 10.1111/j.1365-313X.2007.03293.x.
    • (2007) Plant J. , vol.52 , pp. 1181-1191
    • Bylesjö, M.1    Eriksson, D.2    Kusano, M.3    Moritz, T.4    Trygg, J.5
  • 193
    • 80051934386 scopus 로고    scopus 로고
    • OnPLS-a novel multiblock method for the modelling of predictive and orthogonal variation
    • [193] Löfstedt, T., Trygg, J., OnPLS-a novel multiblock method for the modelling of predictive and orthogonal variation. J. Chemometrics 25 (2011), 441–455, 10.1002/cem.1388.
    • (2011) J. Chemometrics , vol.25 , pp. 441-455
    • Löfstedt, T.1    Trygg, J.2
  • 194
    • 84881581739 scopus 로고    scopus 로고
    • SCA with rotation to distinguish common and distinctive information in linked data
    • [194] Schouteden, M., Van Deun, K., Pattyn, S., Van Mechelen, I., SCA with rotation to distinguish common and distinctive information in linked data. Behav. Res. Methods 45 (2013), 822–833, 10.3758/s13428-012-0295-9.
    • (2013) Behav. Res. Methods , vol.45 , pp. 822-833
    • Schouteden, M.1    Van Deun, K.2    Pattyn, S.3    Van Mechelen, I.4
  • 195
    • 84931035978 scopus 로고    scopus 로고
    • Analysis of multi-source metabolomic data using joint and individual variation explained (JIVE)
    • [195] Kuligowski, J., Pérez-Guaita, D., Sánchez-Illana, Á., León-González, Z., de la Guardia, M., Vento, M., et al. Analysis of multi-source metabolomic data using joint and individual variation explained (JIVE). Analyst 140 (2015), 4521–4529, 10.1039/c5an00706b.
    • (2015) Analyst , vol.140 , pp. 4521-4529
    • Kuligowski, J.1    Pérez-Guaita, D.2    Sánchez-Illana, Á.3    León-González, Z.4    de la Guardia, M.5    Vento, M.6
  • 196
    • 85027948831 scopus 로고    scopus 로고
    • Data fusion in metabolomics using coupled matrix and tensor factorizations
    • [196] Acar, E., Bro, R., Smilde, A.K., Data fusion in metabolomics using coupled matrix and tensor factorizations. Proc. IEEE 103 (2015), 1602–1620, 10.1109/JPROC.2015.2438719.
    • (2015) Proc. IEEE , vol.103 , pp. 1602-1620
    • Acar, E.1    Bro, R.2    Smilde, A.K.3
  • 197
    • 0036083139 scopus 로고    scopus 로고
    • Orthogonal projections to latent structures (O-PLS)
    • [197] Trygg, J., Wold, S., Orthogonal projections to latent structures (O-PLS). J. Chemometrics 16 (2002), 119–128, 10.1002/cem.695.
    • (2002) J. Chemometrics , vol.16 , pp. 119-128
    • Trygg, J.1    Wold, S.2
  • 200
    • 84890282232 scopus 로고    scopus 로고
    • OnPLS integration of transcriptomic, proteomic and metabolomic data shows multi-level oxidative stress responses in the cambium of transgenic hipI- superoxide dismutase Populus plants
    • [200] Srivastava, V., Obudulu, O., Bygdell, J., Löfstedt, T., Rydén, P., Nilsson, R., et al. OnPLS integration of transcriptomic, proteomic and metabolomic data shows multi-level oxidative stress responses in the cambium of transgenic hipI- superoxide dismutase Populus plants. BMC Genomics, 14, 2013, 893, 10.1186/1471-2164-14-893.
    • (2013) BMC Genomics , vol.14 , pp. 893
    • Srivastava, V.1    Obudulu, O.2    Bygdell, J.3    Löfstedt, T.4    Rydén, P.5    Nilsson, R.6
  • 201
    • 84946423143 scopus 로고    scopus 로고
    • Data fusion in metabolomics and proteomics for biomarker discovery
    • [201] Blanchet, L., Smolinska, A., Data fusion in metabolomics and proteomics for biomarker discovery. Methods Mol. Biol 1362 (2016), 209–223, 10.1007/978-1-4939-3106-4_14.
    • (2016) Methods Mol. Biol , vol.1362 , pp. 209-223
    • Blanchet, L.1    Smolinska, A.2


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