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Volumn 2, Issue 1, 2012, Pages 77-99

The effect of LC-MS data preprocessing methods on the selection of plasma biomarkers in fed vs. fasted rats

Author keywords

Biomarkers; Data pre processing; LC QTOF; MarkerLynx; MZmine; Rat plasma; XCMS

Indexed keywords

ACETYLCARNITINE; BIOLOGICAL MARKER; CARNITINE; LYSOPHOSPHATIDYLCHOLINE; PHOSPHATIDYLETHANOLAMINE;

EID: 84873110941     PISSN: None     EISSN: 22181989     Source Type: Journal    
DOI: 10.3390/metabo2010077     Document Type: Article
Times cited : (56)

References (39)
  • 1
    • 67349134667 scopus 로고    scopus 로고
    • Assessing individual metabolic responsiveness to a lipid challenge using a targeted metabolomic approach
    • Zivkovic, A.M.; Wiest, M.M.; Nguyen, U.; Nording, M.L.; Watkins, S.M.; German, J.B. Assessing individual metabolic responsiveness to a lipid challenge using a targeted metabolomic approach. Metabolomics 2009, 5, 209-218.
    • (2009) Metabolomics , vol.5 , pp. 209-218
    • Zivkovic, A.M.1    Wiest, M.M.2    Nguyen, U.3    Nording, M.L.4    Watkins, S.M.5    German, J.B.6
  • 2
    • 1842478313 scopus 로고    scopus 로고
    • Very low-carbohydrate and low-fat diets affect fasting lipids and postprandial lipernia differently in overweight men
    • Sharman, M.J.; Gomez, A.L.; Kraemer, W.J.; Volek, J.S. Very low-carbohydrate and low-fat diets affect fasting lipids and postprandial lipernia differently in overweight men. J. Nutr. 2004, 134, 880-885.
    • (2004) J. Nutr , vol.134 , pp. 880-885
    • Sharman, M.J.1    Gomez, A.L.2    Kraemer, W.J.3    Volek, J.S.4
  • 4
    • 0037208170 scopus 로고    scopus 로고
    • Application of chemometrics to H-1 NMR spectroscopic data to investigate a relationship between human serum metabolic profiles and hypertension
    • Brindle, J.T.; Nicholson, J.K.; Schofield, P.M.; Grainger, D.J.; Holmes, E. Application of chemometrics to H-1 NMR spectroscopic data to investigate a relationship between human serum metabolic profiles and hypertension. Analyst 2003, 128, 32-36.
    • (2003) Analyst , vol.128 , pp. 32-36
    • Brindle, J.T.1    Nicholson, J.K.2    Schofield, P.M.3    Grainger, D.J.4    Holmes, E.5
  • 5
    • 33847241509 scopus 로고    scopus 로고
    • Application of NMR-based metabonomics in the investigation of myocardial ischemia-reperfusion, ischemic preconditioning and antioxidant intervention in rabbits
    • Constantinou, M.A.; Tsantili-Kakoulidou, A.; Andreadou, I.; Iliodromitis, E.K.; Kremastinos, D.T.; Mikros, E. Application of NMR-based metabonomics in the investigation of myocardial ischemia-reperfusion, ischemic preconditioning and antioxidant intervention in rabbits. Eur. J. Pharm. Sci. 2007, 30, 303-314.
    • (2007) Eur. J. Pharm. Sci , vol.30 , pp. 303-314
    • Constantinou, M.A.1    Tsantili-Kakoulidou, A.2    Andreadou, I.3    Iliodromitis, E.K.4    Kremastinos, D.T.5    Mikros, E.6
  • 6
    • 49849083087 scopus 로고    scopus 로고
    • A liquid chromatography-quadrupole time-of-flight (LC-QTOF)-based metabolomic approach reveals new metabolic effects of catechin in rats fed high-fat diets
    • Fardet, A.; Llorach, R.; Martin, J. F.; Besson, C.; Lyan, B.; Pujos-Guillot, E.; Scalbert, A. A liquid chromatography-quadrupole time-of-flight (LC-QTOF)-based metabolomic approach reveals new metabolic effects of catechin in rats fed high-fat diets. J. Proteome Res. 2008, 7, 2388-2398.
    • (2008) J. Proteome Res. , vol.7 , pp. 2388-2398
    • Fardet, A.1    Llorach, R.2    Martin, J.F.3    Besson, C.4    Lyan, B.5    Pujos-Guillot, E.6    Scalbert, A.7
  • 7
    • 77956299196 scopus 로고    scopus 로고
    • Metabolic profiling of plasma in overweight/obese and lean men using ultra performance liquid chromatography and Q-TOF mass spectrometry (UPLC-Q-TOF MS)
    • Kim, J.Y.; Park, J.Y.; Kim, O.Y.; Ham, B.M.; Kim, H.J.; Kwon, D.Y.; Jang, Y.; Lee, J.H. Metabolic profiling of plasma in overweight/obese and lean men using ultra performance liquid chromatography and Q-TOF mass spectrometry (UPLC-Q-TOF MS). J. Proteome Res. 2010, 9, 4368-4375.
    • (2010) J. Proteome Res , vol.9 , pp. 4368-4375
    • Kim, J.Y.1    Park, J.Y.2    Kim, O.Y.3    Ham, B.M.4    Kim, H.J.5    Kwon, D.Y.6    Jang, Y.7    Lee, J.H.8
  • 8
    • 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
    • Wilson, I.D.; Nicholson, J.K.; Castro-Perez, J.; Granger, J.H.; Johnson, K.A.; Smith, B.W.; Plumb, R.S. 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. 2005, 4, 591-598.
    • (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    Plumb, R.S.7
  • 9
    • 34347405493 scopus 로고    scopus 로고
    • Data processing for mass spectrometry-based metabolomics
    • Katajamaa, M.; Oresic, M. Data processing for mass spectrometry-based metabolomics. J. Chromatogr. A 2007, 1158, 318-328.
    • (2007) J. Chromatogr. A , vol.1158 , pp. 318-328
    • Katajamaa, M.1    Oresic, M.2
  • 11
    • 67650733222 scopus 로고    scopus 로고
    • ApLCMS-adaptive processing of high-resolution LC/MS data
    • Yu, T.W.; Park, Y.; Johnson, J.M.; Jones, D.P. apLCMS-adaptive processing of high-resolution LC/MS data. Bioinformatics 2009, 25, 1930-1936.
    • (2009) Bioinformatics , vol.25 , pp. 1930-1936
    • Yu, T.W.1    Park, Y.2    Johnson, J.M.3    Jones, D.P.4
  • 13
    • 54349106196 scopus 로고    scopus 로고
    • Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements
    • Lange, E.; Tautenhahn, R.; Neumann, S.; Gropl, C. Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements. BMC Bioinformatics 2008, 9, 375.
    • (2008) BMC Bioinformatics , vol.9 , pp. 375
    • Lange, E.1    Tautenhahn, R.2    Neumann, S.3    Gropl, C.4
  • 14
    • 77954772536 scopus 로고    scopus 로고
    • MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data
    • 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 2010, 11, 395.
    • (2010) BMC Bioinformatics , vol.11 , pp. 395
    • Pluskal, T.1    Castillo, S.2    Villar-Briones, A.3    Oresic, M.4
  • 15
    • 32444446805 scopus 로고    scopus 로고
    • XCMS: Processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification
    • 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. 2006, 78, 779-787.
    • (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
  • 16
    • 60649089559 scopus 로고    scopus 로고
    • Highly sensitive feature detection for high resolution LC/MS
    • Tautenhahn, R.; Bottcher, C.; Neumann, S. Highly sensitive feature detection for high resolution LC/MS. BMC Bioinformatics 2008, 9, 504.
    • (2008) BMC Bioinformatics , vol.9 , pp. 504
    • Tautenhahn, R.1    Bottcher, C.2    Neumann, S.3
  • 17
  • 19
    • 85043436289 scopus 로고    scopus 로고
    • LC-MS metabolomics top-down approach reveals new exposure and effect biomarkers of apple and apple-pectin intake
    • in press
    • Kristensen, M.; Engelsen, S.B.; Dragsted, L.O. LC-MS metabolomics top-down approach reveals new exposure and effect biomarkers of apple and apple-pectin intake. Metabolomics 2011, in press.
    • (2011) Metabolomics
    • Kristensen, M.1    Engelsen, S.B.2    Dragsted, L.O.3
  • 20
    • 0030034577 scopus 로고    scopus 로고
    • Comparative studies on the substrate specificity of lecithin:Cholesterol acyltransferase towards the molecular species of phosphatidylcholine in the plasma of 14 vertebrates
    • Subbaiah, P.V.; Liu, M. Comparative studies on the substrate specificity of lecithin:cholesterol acyltransferase towards the molecular species of phosphatidylcholine in the plasma of 14 vertebrates. J. Lipid Res. 1996, 37, 113-122.
    • (1996) J. Lipid Res. , vol.37 , pp. 113-122
    • Subbaiah, P.V.1    Liu, M.2
  • 21
    • 0018797112 scopus 로고
    • Cytolytic and Membrane-Perturbing Properties of Lysophosphatidylcholine
    • Weltzien, H.U. Cytolytic and Membrane-Perturbing Properties of Lysophosphatidylcholine. Biochim. Biophys. Acta 1979, 559, 259-287.
    • (1979) Biochim. Biophys. Acta , vol.559 , pp. 259-287
    • Weltzien, H.U.1
  • 23
    • 0021849198 scopus 로고
    • Origin of plasma lysophosphatidylcholine: Evidence for direct hepatic secretion in the rat
    • Sekas, G.; Patton, G.M.; Lincoln, E.C.; Robins, S.J. Origin of plasma lysophosphatidylcholine: Evidence for direct hepatic secretion in the rat. J. Lab. Clin. Med. 1985, 105, 190-194.
    • (1985) J. Lab. Clin. Med , vol.105 , pp. 190-194
    • Sekas, G.1    Patton, G.M.2    Lincoln, E.C.3    Robins, S.J.4
  • 24
    • 0033983832 scopus 로고    scopus 로고
    • Characterization of plasma unsaturated lysophosphatidylcholines in human and rat
    • Croset, M.; Brossard, N.; Polette, A.; Lagarde, M. Characterization of plasma unsaturated lysophosphatidylcholines in human and rat. Biochem. J. 2000, 345, 61-67.
    • (2000) Biochem. J. , vol.345 , pp. 61-67
    • Croset, M.1    Brossard, N.2    Polette, A.3    Lagarde, M.4
  • 26
    • 77953363034 scopus 로고    scopus 로고
    • Comprehensive blood plasma lipidomics by liquid chromatography/quadrupole time-of-flight mass spectrometry
    • Sandra, K.; Pereira, A.D.; Vanhoenacker, G.; David, F.; Sandra, P. Comprehensive blood plasma lipidomics by liquid chromatography/quadrupole time-of-flight mass spectrometry. J. Chromatogr. A 2010, 1217, 4087-4099.
    • (2010) J. Chromatogr. A , vol.1217 , pp. 4087-4099
    • Sandra, K.1    Pereira, A.D.2    Vanhoenacker, G.3    David, F.4    Sandra, P.5
  • 28
    • 0000646490 scopus 로고
    • Carnitine and Derivatives in Rat Tissues
    • Pearson, D.J.; Tubbs, P.K. Carnitine and Derivatives in Rat Tissues. Biochem. J. 1967, 105, 953-963.
    • (1967) Biochem. J , vol.105 , pp. 953-963
    • Pearson, D.J.1    Tubbs, P.K.2
  • 33
    • 0027980252 scopus 로고
    • Purification and Properties of Phospholipase-A(1) from Bovine Brain
    • Pete, M.J.; Ross, A.H.; Exton, J.H. Purification and Properties of Phospholipase-A(1) from Bovine Brain. J. Biol. Chem. 1994, 269, 19494-19500.
    • (1994) J. Biol. Chem. , vol.269 , pp. 19494-19500
    • Pete, M.J.1    Ross, A.H.2    Exton, J.H.3
  • 34
    • 37548999351 scopus 로고    scopus 로고
    • Solving fundamental problems in chromatographic analysis
    • Skov, T.; Bro, R. Solving fundamental problems in chromatographic analysis. Anal. Bioanal. Chem. 2008, 390, 281-285.
    • (2008) Anal. Bioanal. Chem. , vol.390 , pp. 281-285
    • Skov, T.1    Bro, R.2
  • 35
    • 72449164088 scopus 로고    scopus 로고
    • Icoshift: A versatile tool for the rapid alignment of 1D NMR spectra
    • Savorani, F.; Tomasi, G.; Engelsen, S.B. icoshift: A versatile tool for the rapid alignment of 1D NMR spectra. J. Magn. Reson. 2010, 202, 190-202.
    • (2010) J. Magn. Reson , vol.202 , pp. 190-202
    • Savorani, F.1    Tomasi, G.2    Engelsen, S.B.3


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