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Volumn 81, Issue , 2013, Pages 148-158

Selectivity of LC-MS/MS analysis: Implication for proteomics experiments

Author keywords

MRM; Parallel reaction monitoring; Peptide quantification; Quadrupole Orbitrap; SRM; Targeted proteomics

Indexed keywords

ION; PEPTIDE; PROTEOME;

EID: 84877813399     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2012.11.005     Document Type: Article
Times cited : (118)

References (33)
  • 1
    • 33645813378 scopus 로고    scopus 로고
    • Mass spectrometry and protein analysis
    • Domon B., Aebersold R. Mass spectrometry and protein analysis. Science 2006, 312:212-217.
    • (2006) Science , vol.312 , pp. 212-217
    • Domon, B.1    Aebersold, R.2
  • 2
    • 0037435030 scopus 로고    scopus 로고
    • Mass spectrometry-based proteomics
    • Aebersold R., Mann M. Mass spectrometry-based proteomics. Nature 2003, 422:198-207.
    • (2003) Nature , vol.422 , pp. 198-207
    • Aebersold, R.1    Mann, M.2
  • 3
    • 77954523086 scopus 로고    scopus 로고
    • Options and considerations when selecting a quantitative proteomics strategy
    • Domon B., Aebersold R. Options and considerations when selecting a quantitative proteomics strategy. Nat Biotechnol 2010, 28:710-721.
    • (2010) Nat Biotechnol , vol.28 , pp. 710-721
    • Domon, B.1    Aebersold, R.2
  • 4
    • 0001366599 scopus 로고
    • Triple quadrupole mass spectrometry for direct mixture analysis and structure elucidation
    • Yost R.A., Enke C.G. Triple quadrupole mass spectrometry for direct mixture analysis and structure elucidation. Anal Chem 1979, 51:1251-1264.
    • (1979) Anal Chem , vol.51 , pp. 1251-1264
    • Yost, R.A.1    Enke, C.G.2
  • 5
    • 67650564834 scopus 로고    scopus 로고
    • Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
    • Addona T.A., Abbatiello S.E., Schilling B., Skates S.J., Mani D.R., Bunk D.M., et al. Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat Biotechnol 2009, 27:633-641.
    • (2009) Nat Biotechnol , vol.27 , pp. 633-641
    • Addona, T.A.1    Abbatiello, S.E.2    Schilling, B.3    Skates, S.J.4    Mani, D.R.5    Bunk, D.M.6
  • 6
    • 33645721632 scopus 로고    scopus 로고
    • Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins
    • Anderson L., Hunter C.L. Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins. Mol Cell Proteomics 2006, 5:573-588.
    • (2006) Mol Cell Proteomics , vol.5 , pp. 573-588
    • Anderson, L.1    Hunter, C.L.2
  • 7
    • 67449092269 scopus 로고    scopus 로고
    • Clinical quantitation of prostate-specific antigen biomarker in the low nanogram/milliliter range by conventional bore liquid chromatography-tandem mass spectrometry (multiple reaction monitoring) coupling and correlation with ELISA tests
    • Fortin T., Salvador A., Charrier J.P., Lenz C., Lacoux X., Morla A., et al. Clinical quantitation of prostate-specific antigen biomarker in the low nanogram/milliliter range by conventional bore liquid chromatography-tandem mass spectrometry (multiple reaction monitoring) coupling and correlation with ELISA tests. Mol Cell Proteomics 2009, 8:1006-1015.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 1006-1015
    • Fortin, T.1    Salvador, A.2    Charrier, J.P.3    Lenz, C.4    Lacoux, X.5    Morla, A.6
  • 8
    • 71049187147 scopus 로고    scopus 로고
    • Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution
    • Keshishian H., Addona T., Burgess M., Mani D.R., Shi X., Kuhn E., et al. Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution. Mol Cell Proteomics 2009, 8:2339-2349.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 2339-2349
    • Keshishian, H.1    Addona, T.2    Burgess, M.3    Mani, D.R.4    Shi, X.5    Kuhn, E.6
  • 9
    • 66449083773 scopus 로고    scopus 로고
    • Developing multiplexed assays for troponin I and interleukin-33 in plasma by peptide immunoaffinity enrichment and targeted mass spectrometry
    • Kuhn E., Addona T., Keshishian H., Burgess M., Mani D.R., Lee R.T., et al. Developing multiplexed assays for troponin I and interleukin-33 in plasma by peptide immunoaffinity enrichment and targeted mass spectrometry. Clin Chem 2009, 55:1108-1117.
    • (2009) Clin Chem , vol.55 , pp. 1108-1117
    • Kuhn, E.1    Addona, T.2    Keshishian, H.3    Burgess, M.4    Mani, D.R.5    Lee, R.T.6
  • 10
    • 71049137289 scopus 로고    scopus 로고
    • Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma
    • Kuzyk M.A., Smith D., Yang J., Cross T.J., Jackson A.M., Hardie D.B., et al. Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma. Mol Cell Proteomics 2009, 8:1860-1877.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 1860-1877
    • Kuzyk, M.A.1    Smith, D.2    Yang, J.3    Cross, T.J.4    Jackson, A.M.5    Hardie, D.B.6
  • 11
    • 84860866702 scopus 로고    scopus 로고
    • Highly multiplexed targeted proteomics using precise control of peptide retention time
    • Gallien S., Peterman S., Kiyonami R., Souady J., Duriez E., Schoen A., et al. Highly multiplexed targeted proteomics using precise control of peptide retention time. Proteomics 2012, 12:1122-1133.
    • (2012) Proteomics , vol.12 , pp. 1122-1133
    • Gallien, S.1    Peterman, S.2    Kiyonami, R.3    Souady, J.4    Duriez, E.5    Schoen, A.6
  • 12
    • 75749126208 scopus 로고    scopus 로고
    • Automated detection of inaccurate and imprecise transitions in peptide quantification by multiple reaction monitoring mass spectrometry
    • Abbatiello S.E., Mani D.R., Keshishian H., Carr S.A. Automated detection of inaccurate and imprecise transitions in peptide quantification by multiple reaction monitoring mass spectrometry. Clin Chem 2010, 56:291-305.
    • (2010) Clin Chem , vol.56 , pp. 291-305
    • Abbatiello, S.E.1    Mani, D.R.2    Keshishian, H.3    Carr, S.A.4
  • 13
    • 63049090914 scopus 로고    scopus 로고
    • How specific is my SRM?: the issue of precursor and product ion redundancy
    • Sherman J., McKay M.J., Ashman K., Molloy M.P. How specific is my SRM?: the issue of precursor and product ion redundancy. Proteomics 2009, 9:1120-1123.
    • (2009) Proteomics , vol.9 , pp. 1120-1123
    • Sherman, J.1    McKay, M.J.2    Ashman, K.3    Molloy, M.P.4
  • 14
    • 38349068918 scopus 로고    scopus 로고
    • Quantitative, multiplexed assays for low abundance proteins in plasma by targeted mass spectrometry and stable isotope dilution
    • Keshishian H., Addona T., Burgess M., Kuhn E., Carr S.A. Quantitative, multiplexed assays for low abundance proteins in plasma by targeted mass spectrometry and stable isotope dilution. Mol Cell Proteomics 2007, 6:2212-2229.
    • (2007) Mol Cell Proteomics , vol.6 , pp. 2212-2229
    • Keshishian, H.1    Addona, T.2    Burgess, M.3    Kuhn, E.4    Carr, S.A.5
  • 16
    • 55049086987 scopus 로고    scopus 로고
    • Use of an immunoaffinity-mass spectrometry-based approach for the quantification of protein biomarkers from serum samples of lung cancer patients
    • Nicol G.R., Han M., Kim J., Birse C.E., Brand E., Nguyen A., et al. Use of an immunoaffinity-mass spectrometry-based approach for the quantification of protein biomarkers from serum samples of lung cancer patients. Mol Cell Proteomics 2008, 7:1974-1982.
    • (2008) Mol Cell Proteomics , vol.7 , pp. 1974-1982
    • Nicol, G.R.1    Han, M.2    Kim, J.3    Birse, C.E.4    Brand, E.5    Nguyen, A.6
  • 17
    • 35348863892 scopus 로고    scopus 로고
    • High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites
    • Stahl-Zeng J., Lange V., Ossola R., Eckhardt K., Krek W., Aebersold R., et al. High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites. Mol Cell Proteomics 2007, 6:1809-1817.
    • (2007) Mol Cell Proteomics , vol.6 , pp. 1809-1817
    • Stahl-Zeng, J.1    Lange, V.2    Ossola, R.3    Eckhardt, K.4    Krek, W.5    Aebersold, R.6
  • 18
    • 67650901565 scopus 로고    scopus 로고
    • Validated quantitation method for a peptide in rat serum using liquid chromatography/high-field asymmetric waveform ion mobility spectrometry
    • Klaassen T., Szwandt S., Kapron J.T., Roemer A. Validated quantitation method for a peptide in rat serum using liquid chromatography/high-field asymmetric waveform ion mobility spectrometry. Rapid Commun Mass Spectrom 2009, 23:2301-2306.
    • (2009) Rapid Commun Mass Spectrom , vol.23 , pp. 2301-2306
    • Klaassen, T.1    Szwandt, S.2    Kapron, J.T.3    Roemer, A.4
  • 19
    • 53049106213 scopus 로고    scopus 로고
    • Liquid chromatography/tandem mass spectrometry (highly selective selected reaction monitoring) for the analysis of isopropylthioxanthone in packaged food
    • Gallart-Ayala H., Moyano E., Galceran M.T. Liquid chromatography/tandem mass spectrometry (highly selective selected reaction monitoring) for the analysis of isopropylthioxanthone in packaged food. J Chromatogr A 2008, 1208:182-188.
    • (2008) J Chromatogr A , vol.1208 , pp. 182-188
    • Gallart-Ayala, H.1    Moyano, E.2    Galceran, M.T.3
  • 20
    • 77955928876 scopus 로고    scopus 로고
    • Fast liquid chromatography/tandem mass spectrometry (highly selective selected reaction monitoring) for the determination of toltrazuril and its metabolites in food
    • Martinez-Villalba A., Moyano E., Martins C.P., Galceran M.T. Fast liquid chromatography/tandem mass spectrometry (highly selective selected reaction monitoring) for the determination of toltrazuril and its metabolites in food. Anal Bioanal Chem 2010, 397:2893-2901.
    • (2010) Anal Bioanal Chem , vol.397 , pp. 2893-2901
    • Martinez-Villalba, A.1    Moyano, E.2    Martins, C.P.3    Galceran, M.T.4
  • 21
    • 70649087115 scopus 로고    scopus 로고
    • Multiple reaction monitoring cubed for protein quantification at the low nanogram/milliliter level in nondepleted human serum
    • Fortin T., Salvador A., Charrier J.P., Lenz C., Bettsworth F., Lacoux X., et al. Multiple reaction monitoring cubed for protein quantification at the low nanogram/milliliter level in nondepleted human serum. Anal Chem 2009, 81:9343-9352.
    • (2009) Anal Chem , vol.81 , pp. 9343-9352
    • Fortin, T.1    Salvador, A.2    Charrier, J.P.3    Lenz, C.4    Bettsworth, F.5    Lacoux, X.6
  • 22
    • 80052769923 scopus 로고    scopus 로고
    • Mass spectrometry-based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer
    • [10:M111 011015]
    • Michalski A., Damoc E., Hauschild J.P., Lange O., Wieghaus A., Makarov A., et al. Mass spectrometry-based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer. Mol Cell Proteomics 2011, 10(9). [10:M111 011015].
    • (2011) Mol Cell Proteomics , vol.10 , Issue.9
    • Michalski, A.1    Damoc, E.2    Hauschild, J.P.3    Lange, O.4    Wieghaus, A.5    Makarov, A.6
  • 24
    • 79952540456 scopus 로고    scopus 로고
    • Selected reaction monitoring applied to proteomics
    • Gallien S., Duriez E., Domon B. Selected reaction monitoring applied to proteomics. J Mass Spectrom 2011, 46:298-312.
    • (2011) J Mass Spectrom , vol.46 , pp. 298-312
    • Gallien, S.1    Duriez, E.2    Domon, B.3
  • 25
    • 79953227740 scopus 로고    scopus 로고
    • Increased selectivity, analytical precision, and throughput in targeted proteomics
    • [10:M110 002931]
    • Kiyonami R., Schoen A., Prakash A., Peterman S., Zabrouskov V., Picotti P., et al. Increased selectivity, analytical precision, and throughput in targeted proteomics. Mol Cell Proteomics 2011, 10(2). [10:M110 002931].
    • (2011) Mol Cell Proteomics , vol.10 , Issue.2
    • Kiyonami, R.1    Schoen, A.2    Prakash, A.3    Peterman, S.4    Zabrouskov, V.5    Picotti, P.6
  • 26
    • 67049132416 scopus 로고    scopus 로고
    • Expediting the development of targeted SRM assays: using data from shotgun proteomics to automate method development
    • Prakash A., Tomazela D.M., Frewen B., Maclean B., Merrihew G., Peterman S., et al. Expediting the development of targeted SRM assays: using data from shotgun proteomics to automate method development. J Proteome Res 2009, 8:2733-2739.
    • (2009) J Proteome Res , vol.8 , pp. 2733-2739
    • Prakash, A.1    Tomazela, D.M.2    Frewen, B.3    Maclean, B.4    Merrihew, G.5    Peterman, S.6
  • 27
    • 79955595074 scopus 로고    scopus 로고
    • MProphet: automated data processing and statistical validation for large-scale SRM experiments
    • Reiter L., Rinner O., Picotti P., Huttenhain R., Beck M., Brusniak M.Y., et al. mProphet: automated data processing and statistical validation for large-scale SRM experiments. Nat Methods 2011, 8:430-435.
    • (2011) Nat Methods , vol.8 , pp. 430-435
    • Reiter, L.1    Rinner, O.2    Picotti, P.3    Huttenhain, R.4    Beck, M.5    Brusniak, M.Y.6
  • 28
    • 14744293536 scopus 로고    scopus 로고
    • Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra
    • Venable J.D., Dong M.Q., Wohlschlegel J., Dillin A., Yates J.R. Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra. Nat Methods 2004, 1:39-45.
    • (2004) Nat Methods , vol.1 , pp. 39-45
    • Venable, J.D.1    Dong, M.Q.2    Wohlschlegel, J.3    Dillin, A.4    Yates, J.R.5
  • 29
    • 84861860481 scopus 로고    scopus 로고
    • Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis
    • [11:O111 016717]
    • Gillet L.C., Navarro P., Tate S., Rost H., Selevsek N., Reiter L., et al. Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis. Mol Cell Proteomics 2012, 11(6). [11:O111 016717].
    • (2012) Mol Cell Proteomics , vol.11 , Issue.6
    • Gillet, L.C.1    Navarro, P.2    Tate, S.3    Rost, H.4    Selevsek, N.5    Reiter, L.6
  • 30
    • 68049114653 scopus 로고    scopus 로고
    • Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean
    • Panchaud A., Scherl A., Shaffer S.A., von Haller P.D., Kulasekara H.D., Miller S.I., et al. Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean. Anal Chem 2009, 81:6481-6488.
    • (2009) Anal Chem , vol.81 , pp. 6481-6488
    • Panchaud, A.1    Scherl, A.2    Shaffer, S.A.3    von Haller, P.D.4    Kulasekara, H.D.5    Miller, S.I.6
  • 31
    • 84860868797 scopus 로고    scopus 로고
    • Sigpep: calculating unique peptide signature transition sets in a complete proteome background
    • Helsens K., Mueller M., Hulstaert N., Martens L. Sigpep: calculating unique peptide signature transition sets in a complete proteome background. Proteomics 2012, 12:1142-1146.
    • (2012) Proteomics , vol.12 , pp. 1142-1146
    • Helsens, K.1    Mueller, M.2    Hulstaert, N.3    Martens, L.4
  • 32
    • 84863900597 scopus 로고    scopus 로고
    • A computational tool to detect and avoid redundancy in selected reaction monitoring
    • Rost H.L., Malmstrom L., Aebersold R. A computational tool to detect and avoid redundancy in selected reaction monitoring. Mol Cell Proteomics 2012, 11(8):540-549.
    • (2012) Mol Cell Proteomics , vol.11 , Issue.8 , pp. 540-549
    • Rost, H.L.1    Malmstrom, L.2    Aebersold, R.3
  • 33
    • 71049143452 scopus 로고    scopus 로고
    • Unique ion signature mass spectrometry, a deterministic method to assign peptide identity
    • Sherman J., McKay M.J., Ashman K., Molloy M.P. Unique ion signature mass spectrometry, a deterministic method to assign peptide identity. Mol Cell Proteomics 2009, 8:2051-2062.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 2051-2062
    • Sherman, J.1    McKay, M.J.2    Ashman, K.3    Molloy, M.P.4


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