메뉴 건너뛰기




Volumn 113, Issue , 2015, Pages 388-399

Parallel reaction monitoring (PRM) and selected reaction monitoring (SRM) exhibit comparable linearity, dynamic range and precision for targeted quantitative HDL proteomics

Author keywords

HDL; PRM; Single internal standard protein; SRM; Targeted proteomics

Indexed keywords

APOLIPOPROTEIN A1; HIGH DENSITY LIPOPROTEIN; NITROGEN 15; NITROGEN;

EID: 84909953587     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2014.10.017     Document Type: Article
Times cited : (165)

References (36)
  • 1
    • 55049104915 scopus 로고    scopus 로고
    • Accurate inclusion mass screening: a bridge from unbiased discovery to targeted assay development for biomarker verification
    • Jaffe J.D., Keshishian H., Chang B., Addona T.A., Gillette M.A., Carr S.A. Accurate inclusion mass screening: a bridge from unbiased discovery to targeted assay development for biomarker verification. Mol Cell Proteomics 2008, 7:1952-1962.
    • (2008) Mol Cell Proteomics , vol.7 , pp. 1952-1962
    • Jaffe, J.D.1    Keshishian, H.2    Chang, B.3    Addona, T.A.4    Gillette, M.A.5    Carr, S.A.6
  • 2
    • 84863276025 scopus 로고    scopus 로고
    • Mass spectrometry in biomarker applications: from untargeted discovery to targeted verification, and implications for platform convergence and clinical application
    • Smith R.D. Mass spectrometry in biomarker applications: from untargeted discovery to targeted verification, and implications for platform convergence and clinical application. Clin Chem 2012, 58:528-530.
    • (2012) Clin Chem , vol.58 , pp. 528-530
    • Smith, R.D.1
  • 3
    • 54049090766 scopus 로고    scopus 로고
    • Selected reaction monitoring for quantitative proteomics: a tutorial
    • Lange V., Picotti P., Domon B., Aebersold R. Selected reaction monitoring for quantitative proteomics: a tutorial. Mol Syst Biol 2008, 4:1-14.
    • (2008) Mol Syst Biol , vol.4 , pp. 1-14
    • Lange, V.1    Picotti, P.2    Domon, B.3    Aebersold, R.4
  • 4
    • 84877813399 scopus 로고    scopus 로고
    • Selectivity of LC-MS/MS analysis: implication for proteomics experiments
    • Gallien S., Duriez E., Demeure K., Domon B. Selectivity of LC-MS/MS analysis: implication for proteomics experiments. J Proteomics 2013, 81:148-158.
    • (2013) J Proteomics , vol.81 , pp. 148-158
    • Gallien, S.1    Duriez, E.2    Demeure, K.3    Domon, B.4
  • 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
  • 7
    • 84859312471 scopus 로고    scopus 로고
    • Multiple-reaction monitoring-mass spectrometric assays can accurately measure the relative protein abundance in complex mixtures
    • Hoofnagle A.N., Becker J.O., Oda M.N., Cavigiolio G., Mayer P., Vaisar T. Multiple-reaction monitoring-mass spectrometric assays can accurately measure the relative protein abundance in complex mixtures. Clin Chem 2012, 58:777-781.
    • (2012) Clin Chem , vol.58 , pp. 777-781
    • Hoofnagle, A.N.1    Becker, J.O.2    Oda, M.N.3    Cavigiolio, G.4    Mayer, P.5    Vaisar, T.6
  • 8
    • 84904355213 scopus 로고    scopus 로고
    • Technical considerations for large-scale parallel reaction monitoring analysis
    • Gallien S., Bourmaud A., Kim S.Y., Domon B. Technical considerations for large-scale parallel reaction monitoring analysis. J Proteomics 2013, 4:544-547.
    • (2013) J Proteomics , vol.4 , pp. 544-547
    • Gallien, S.1    Bourmaud, A.2    Kim, S.Y.3    Domon, B.4
  • 9
    • 84887873381 scopus 로고    scopus 로고
    • Recent advances in mass spectrometry: data independent analysis and hyper reaction monitoring
    • Law K.P., Lim Y.P. Recent advances in mass spectrometry: data independent analysis and hyper reaction monitoring. Expert Rev Proteomics 2013, 10:551-566.
    • (2013) Expert Rev Proteomics , vol.10 , pp. 551-566
    • Law, K.P.1    Lim, Y.P.2
  • 10
    • 84869233177 scopus 로고    scopus 로고
    • Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics
    • Peterson A.C., Russell J.D., Bailey D.J., Westphall M.S., Coon J.J. Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics. Mol Cell Proteomics 2012, 11:1475-1488.
    • (2012) Mol Cell Proteomics , vol.11 , pp. 1475-1488
    • Peterson, A.C.1    Russell, J.D.2    Bailey, D.J.3    Westphall, M.S.4    Coon, J.J.5
  • 11
    • 84892981214 scopus 로고    scopus 로고
    • Comparison of targeted peptide quantification assays for reductive dehalogenases by selective reaction monitoring (SRM) and precursor reaction monitoring (PRM)
    • Schiffmann C., Hansen R., Baumann S., Kublik A., Nielsen P.H., Adrian L., et al. Comparison of targeted peptide quantification assays for reductive dehalogenases by selective reaction monitoring (SRM) and precursor reaction monitoring (PRM). Anal Bioanal Chem 2014, 406:283-291.
    • (2014) Anal Bioanal Chem , vol.406 , pp. 283-291
    • Schiffmann, C.1    Hansen, R.2    Baumann, S.3    Kublik, A.4    Nielsen, P.H.5    Adrian, L.6
  • 13
    • 33745026603 scopus 로고
    • The distribution and chemical composition of ultracentrifugally separated lipoproteins in human serum
    • Havel R.J., Eder H.A., Bragdon J.H. The distribution and chemical composition of ultracentrifugally separated lipoproteins in human serum. J Clin Invest 1955, 34:1345-1353.
    • (1955) J Clin Invest , vol.34 , pp. 1345-1353
    • Havel, R.J.1    Eder, H.A.2    Bragdon, J.H.3
  • 14
    • 66349083560 scopus 로고    scopus 로고
    • Proteomic analysis of defined HDL subpopulations reveals particle-specific protein clusters: relevance to antioxidative function
    • Davidson W.S., Silva R.A., Chantepie S., Lagor W.R., Chapman M.J., Kontush A. Proteomic analysis of defined HDL subpopulations reveals particle-specific protein clusters: relevance to antioxidative function. Arterioscler Thromb Vasc Biol 2009, 29:870-876.
    • (2009) Arterioscler Thromb Vasc Biol , vol.29 , pp. 870-876
    • Davidson, W.S.1    Silva, R.A.2    Chantepie, S.3    Lagor, W.R.4    Chapman, M.J.5    Kontush, A.6
  • 15
    • 84884138140 scopus 로고    scopus 로고
    • Proteomic diversity of high density lipoproteins: our emerging understanding of its importance in lipid transport and beyond
    • Shah A.S., Tan L., Long J.L., Davidson W.S. Proteomic diversity of high density lipoproteins: our emerging understanding of its importance in lipid transport and beyond. J Lipid Res 2013, 54:2575-2585.
    • (2013) J Lipid Res , vol.54 , pp. 2575-2585
    • Shah, A.S.1    Tan, L.2    Long, J.L.3    Davidson, W.S.4
  • 16
    • 84872091789 scopus 로고    scopus 로고
    • Heart disease and stroke statistics-2013 update: a report from the American Heart Association
    • Go A.S., Mozaffarian D., Roger V.L., Benjamin E.J., Berry J.D., Borden W.B., et al. Heart disease and stroke statistics-2013 update: a report from the American Heart Association. Circulation 2013, 127:e6-e245.
    • (2013) Circulation , vol.127 , pp. e6-e245
    • Go, A.S.1    Mozaffarian, D.2    Roger, V.L.3    Benjamin, E.J.4    Berry, J.D.5    Borden, W.B.6
  • 18
    • 84868648516 scopus 로고    scopus 로고
    • The not-so-simple HDL story: Is it time to revise the HDL cholesterol hypothesis?
    • Rader D.J., Tall A.R. The not-so-simple HDL story: Is it time to revise the HDL cholesterol hypothesis?. Nat Med 2012, 18:1344-1346.
    • (2012) Nat Med , vol.18 , pp. 1344-1346
    • Rader, D.J.1    Tall, A.R.2
  • 20
    • 84871983086 scopus 로고    scopus 로고
    • Quantitative analysis of peptides and proteins in biomedicine by targeted mass spectrometry
    • Gillette M.A., Carr S.A. Quantitative analysis of peptides and proteins in biomedicine by targeted mass spectrometry. Nat Methods 2013, 10:28-34.
    • (2013) Nat Methods , vol.10 , pp. 28-34
    • Gillette, M.A.1    Carr, S.A.2
  • 21
    • 84861990380 scopus 로고    scopus 로고
    • Selected reaction monitoring-based proteomics: workflows, potential, pitfalls and future directions
    • Picotti P., Aebersold R. Selected reaction monitoring-based proteomics: workflows, potential, pitfalls and future directions. Nat Methods 2012, 9:555-566.
    • (2012) Nat Methods , vol.9 , pp. 555-566
    • Picotti, P.1    Aebersold, R.2
  • 22
    • 74049131716 scopus 로고    scopus 로고
    • High-throughput generation of selected reaction-monitoring assays for proteins and proteomes
    • Picotti P., Rinner O., Stallmach R., Dautel F., Farrah T., Domon B., et al. High-throughput generation of selected reaction-monitoring assays for proteins and proteomes. Nat Methods 2010, 7:43-46.
    • (2010) Nat Methods , vol.7 , pp. 43-46
    • Picotti, P.1    Rinner, O.2    Stallmach, R.3    Dautel, F.4    Farrah, T.5    Domon, B.6
  • 23
    • 84899997891 scopus 로고    scopus 로고
    • PeptidePicker: a scientific workflow with web interface for selecting appropriate peptides for targeted proteomics experiments
    • Mohammed Y., Domański D., Jackson A.M., Smith D.S., Deelder A.M., Palmblad M., et al. PeptidePicker: a scientific workflow with web interface for selecting appropriate peptides for targeted proteomics experiments. J Proteomics 2014, 106:151-161.
    • (2014) J Proteomics , vol.106 , pp. 151-161
    • Mohammed, Y.1    Domański, D.2    Jackson, A.M.3    Smith, D.S.4    Deelder, A.M.5    Palmblad, M.6
  • 24
    • 0037759731 scopus 로고    scopus 로고
    • Optimized bacterial expression of human apolipoprotein A-I
    • Ryan R.O., Forte T.M., Oda M.N. Optimized bacterial expression of human apolipoprotein A-I. Protein Expr Purif 2003, 27:98-103.
    • (2003) Protein Expr Purif , vol.27 , pp. 98-103
    • Ryan, R.O.1    Forte, T.M.2    Oda, M.N.3
  • 25
    • 10744229702 scopus 로고    scopus 로고
    • Paraoxonase activity, but not haplotype utilizing the linkage disequilibrium structure, predicts vascular disease
    • Jarvik G.P., Hatsukami T.S., Carlson C., Richter R.J., Jampsa R., Brophy V.H., et al. Paraoxonase activity, but not haplotype utilizing the linkage disequilibrium structure, predicts vascular disease. Arterioscler Thromb Vasc Biol 2003, 23:1465-1471.
    • (2003) Arterioscler Thromb Vasc Biol , vol.23 , pp. 1465-1471
    • Jarvik, G.P.1    Hatsukami, T.S.2    Carlson, C.3    Richter, R.J.4    Jampsa, R.5    Brophy, V.H.6
  • 26
    • 0025779078 scopus 로고
    • Protein kinase C as a mediator of high density lipoprotein receptor-dependent efflux of intracellular cholesterol
    • Mendez A., Oram J., Bierman E. Protein kinase C as a mediator of high density lipoprotein receptor-dependent efflux of intracellular cholesterol. J Biol Chem 1991, 266:10104-10111.
    • (1991) J Biol Chem , vol.266 , pp. 10104-10111
    • Mendez, A.1    Oram, J.2    Bierman, E.3
  • 27
    • 33847368173 scopus 로고    scopus 로고
    • Shotgun proteomics implicates protease inhibition and complement activation in the antiinflammatory properties of HDL
    • Vaisar T., Pennathur S., Green P.S., Gharib S.A., Hoofnagle A.N., Cheung M.C., et al. Shotgun proteomics implicates protease inhibition and complement activation in the antiinflammatory properties of HDL. J Clin Invest 2007, 117:746-756.
    • (2007) J Clin Invest , vol.117 , pp. 746-756
    • Vaisar, T.1    Pennathur, S.2    Green, P.S.3    Gharib, S.A.4    Hoofnagle, A.N.5    Cheung, M.C.6
  • 28
    • 0037108887 scopus 로고    scopus 로고
    • Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
    • Keller A., Nesvizhskii A.I., Kolker E., Aebersold R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal Chem 2002, 74:5383-5392.
    • (2002) Anal Chem , vol.74 , pp. 5383-5392
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 29
    • 0042338362 scopus 로고    scopus 로고
    • A statistical model for identifying proteins by tandem mass spectrometry
    • Nesvizhskii A.I., Keller A., Kolker E., Aebersold R. A statistical model for identifying proteins by tandem mass spectrometry. Anal Chem 2003, 75:4646-4658.
    • (2003) Anal Chem , vol.75 , pp. 4646-4658
    • Nesvizhskii, A.I.1    Keller, A.2    Kolker, E.3    Aebersold, R.4
  • 30
    • 77951965920 scopus 로고    scopus 로고
    • Skyline: an open source document editor for creating and analyzing targeted proteomics experiments
    • MacLean B., Tomazela D.M., Shulman N., Chambers M., Finney G.L., Frewen B., et al. Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics 2010, 26:966-968.
    • (2010) Bioinformatics , vol.26 , pp. 966-968
    • MacLean, B.1    Tomazela, D.M.2    Shulman, N.3    Chambers, M.4    Finney, G.L.5    Frewen, B.6
  • 31
    • 0037099575 scopus 로고    scopus 로고
    • Linear regression for calibration lines revisited: weighting schemes for bioanalytical methods
    • Almeida A.M., Castel-Branco M.M., Falcão A.C. Linear regression for calibration lines revisited: weighting schemes for bioanalytical methods. J Chromatogr B 2002, 774:215-222.
    • (2002) J Chromatogr B , vol.774 , pp. 215-222
    • Almeida, A.M.1    Castel-Branco, M.M.2    Falcão, A.C.3
  • 32
    • 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
  • 33
    • 84871420249 scopus 로고    scopus 로고
    • Considerations on selected reaction monitoring experiments: Implications for the selectivity and accuracy of measurements
    • Domon B. Considerations on selected reaction monitoring experiments: Implications for the selectivity and accuracy of measurements. Proteomics Clin Appl 2012, 6:609-614.
    • (2012) Proteomics Clin Appl , vol.6 , pp. 609-614
    • Domon, B.1
  • 34
    • 84908219488 scopus 로고
    • Statistical methods for assessing agreement between two methods of clinical measurement
    • Bland J.M., Altman D.G. Statistical methods for assessing agreement between two methods of clinical measurement. Lancet 1986, 1:307-310.
    • (1986) Lancet , vol.1 , pp. 307-310
    • Bland, J.M.1    Altman, D.G.2
  • 36
    • 84892160736 scopus 로고    scopus 로고
    • The application of multiple reaction monitoring and multi-analyte profiling to HDL proteins
    • Yassine H.N., Jackson A.M., Borges C.R., Billheimer D., Koh H., Smith D., et al. The application of multiple reaction monitoring and multi-analyte profiling to HDL proteins. Lipids Health Dis 2014, 13:13-18.
    • (2014) Lipids Health Dis , vol.13 , pp. 13-18
    • Yassine, H.N.1    Jackson, A.M.2    Borges, C.R.3    Billheimer, D.4    Koh, H.5    Smith, D.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.