메뉴 건너뛰기




Volumn 8, Issue 2, 2011, Pages 165-173

Applying selected reaction monitoring to targeted proteomics

Author keywords

biomarker; chemical proteomics; mass spectrometry; multiple reaction monitoring; post translational modification; PTM; selected reaction monitoring; targeted proteomics

Indexed keywords

CHROMATOGRAPHY; DIAGNOSTIC PROCEDURE; ENZYME LINKED IMMUNOSORBENT ASSAY; MASS SPECTROMETRY; MEASUREMENT; OXIDATION; PROTEIN ANALYSIS; PROTEIN MODIFICATION; PROTEOMICS; REVIEW; SCREENING; SELECTED REACTION MONITORING; VALIDATION PROCESS; WESTERN BLOTTING;

EID: 79955069761     PISSN: 14789450     EISSN: 17448387     Source Type: Journal    
DOI: 10.1586/epr.11.11     Document Type: Review
Times cited : (48)

References (47)
  • 2
    • 68749094119 scopus 로고    scopus 로고
    • Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics
    • Picotti P, Bodenmiller B, Mueller LN, Domon B, Aebersold R. Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics. Cell 138(4), 795-806 (2009).
    • (2009) Cell , vol.138 , Issue.4 , pp. 795-806
    • Picotti, P.1    Bodenmiller, B.2    Mueller, L.N.3    Domon, B.4    Aebersold, R.5
  • 3
    • 63049090914 scopus 로고    scopus 로고
    • How specific is my SRM?: The issue of precursor and product ion redundancy
    • Sherman J, McKay MJ, Ashman K, Molloy MP. How specific is my SRM?: the issue of precursor and product ion redundancy. Proteomics 9(5), 1120-1123 (2009).
    • (2009) Proteomics , vol.9 , Issue.5 , pp. 1120-1123
    • Sherman, J.1    McKay, M.J.2    Ashman, K.3    Molloy, M.P.4
  • 4
    • 77449108855 scopus 로고    scopus 로고
    • The PeptideAtlas project
    • Deutsch EW. The PeptideAtlas project. Methods Mol. Biol. 604, 285-296 (2010).
    • (2010) Methods Mol. Biol. , vol.604 , pp. 285-296
    • Deutsch, E.W.1
  • 5
    • 77951965920 scopus 로고    scopus 로고
    • Skyline: An open source document editor for creating and analyzing targeted proteomics experiments
    • MacLean B, Tomazela DM, Shulman N et al. Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics 26(7), 966-968 (2010).
    • (2010) Bioinformatics , vol.26 , Issue.17 , pp. 966-968
    • MacLean, B.1    Tomazela, D.M.2    Shulman, N.3
  • 6
    • 70349972789 scopus 로고    scopus 로고
    • MaRiMba: A software application for spectral library-based MRM transition list assembly
    • Sherwood CA, Eastham A, Lee LW et al. MaRiMba: a software application for spectral library-based MRM transition list assembly. J. Proteome Res. 8(10), 4396-4405 (2009).
    • (2009) J. Proteome Res. , vol.8 , Issue.10 , pp. 4396-4405
    • Sherwood, C.A.1    Eastham, A.2    Lee, L.W.3
  • 7
    • 73649085180 scopus 로고    scopus 로고
    • MRMaid-DB: A repository of published SRM transitions
    • Cham JA, Bianco L, Barton C, Bessant C. MRMaid-DB: a repository of published SRM transitions. J. Proteome Res. 9(1), 620-625 (2010).
    • (2010) J. Proteome Res. , vol.9 , Issue.11 , pp. 620-625
    • Cham, J.A.1    Bianco, L.2    Barton, C.3    Bessant, C.4
  • 8
    • 59849093889 scopus 로고    scopus 로고
    • Prediction of high-responding peptides for targeted protein assays by mass spectrometry
    • Fusaro VA, Mani DR, Mesirov JP, Carr SA. Prediction of high-responding peptides for targeted protein assays by mass spectrometry. Nat. Biotechnol. 27(2), 190-198 (2009).
    • (2009) Nat. Biotechnol. , vol.27 , Issue.2 , pp. 190-198
    • Fusaro, V.A.1    Mani, D.R.2    Mesirov, J.P.3    Carr, S.A.4
  • 10
    • 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. 4, 222 (2008).
    • (2008) Mol. Syst. Biol. , vol.4 , pp. 222
    • Lange, V.1    Picotti, P.2    Domon, B.3    Aebersold, R.4
  • 13
    • 13444260275 scopus 로고    scopus 로고
    • The absolute quantification strategy: A general procedure for the quantification of proteins and post-translational modifications
    • DOI 10.1016/j.ymeth.2004.08.018
    • Kirkpatrick DS, Gerber SA, Gygi SP. The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods 35(3), 265-273 (2005). (Pubitemid 40255592)
    • (2005) Methods , vol.35 , Issue.3 SPEC. ISSUE , pp. 265-273
    • Kirkpatrick, D.S.1    Gerber, S.A.2    Gygi, S.P.3
  • 14
    • 59149084542 scopus 로고    scopus 로고
    • Targeted proteomic strategy for clinical biomarker discovery
    • Schiess R, Wollscheid B, Aebersold R. Targeted proteomic strategy for clinical biomarker discovery. Mol. Oncol. 3(1), 33-44 (2009).
    • (2009) Mol. Oncol. , vol.3 , Issue.1 , pp. 33-44
    • Schiess, R.1    Wollscheid, B.2    Aebersold, R.3
  • 15
    • 78149287965 scopus 로고    scopus 로고
    • Synthetic peptide arrays for pathway-level protein monitoring by LC-MS/MS
    • Hewel JA, Liu J, Onishi K et al. Synthetic peptide arrays for pathway-level protein monitoring by LC-MS/MS. Mol. Cell. Proteomics 9(11), 2460-2473 (2010).
    • (2010) Mol. Cell. Proteomics , vol.9 , Issue.111 , pp. 2460-2473
    • Hewel, J.A.1    Liu, J.2    Onishi, K.3
  • 16
    • 74049131716 scopus 로고    scopus 로고
    • High-throughput generation of selected reaction-monitoring assays for proteins and proteomes
    • Picotti P, Rinner O, Stallmach R et al. High-throughput generation of selected reaction-monitoring assays for proteins and proteomes. Nat. Methods 7(1), 43-46 (2010).
    • (2010) Nat. Methods , vol.7 , Issue.11 , pp. 43-46
    • Picotti, P.1    Rinner, O.2    Stallmach, R.3
  • 17
    • 79953227740 scopus 로고    scopus 로고
    • Increased selectivity, analytical precision, and throughput in targeted proteomics
    • Kiyonami R, Schoen A, Prakash A et al. Increased selectivity, analytical precision, and throughput in targeted proteomics. Mol. Cell. Proteomics 10(2), M110.002931 (2010).
    • (2010) Mol. Cell. Proteomics , vol.10 , Issue.2
    • Kiyonami, R.1    Schoen, A.2    Prakash, A.3
  • 18
    • 77952082595 scopus 로고    scopus 로고
    • Measurement of protein phosphorylation stoichiometry by selected reaction monitoring mass spectrometry
    • Jin LL, Tong J, Prakash A et al. Measurement of protein phosphorylation stoichiometry by selected reaction monitoring mass spectrometry. J. Proteome Res. 9(5), 2752-2761 (2010).
    • (2010) J. Proteome Res. , vol.9 , Issue.15 , pp. 2752-2761
    • Jin, L.L.1    Tong, J.2    Prakash, A.3
  • 19
    • 75749115605 scopus 로고    scopus 로고
    • Selected reaction monitoring-mass spectrometric immunoassay responsive to parathyroid hormone and related variants
    • Lopez MF, Rezai T, Sarracino DA et al. Selected reaction monitoring-mass spectrometric immunoassay responsive to parathyroid hormone and related variants. Clin. Chem. 56(2), 281-290 (2010).
    • (2010) Clin. Chem. , vol.56 , Issue.12 , pp. 281-290
    • Lopez, M.F.1    Rezai, T.2    Sarracino, D.A.3
  • 20
    • 77950395166 scopus 로고    scopus 로고
    • Determination of protein stoichiometry within protein complexes using absolute quantification and multiple reaction monitoring
    • Schmidt C, Lenz C, Grote M, Lührmann R, Urlaub H. Determination of protein stoichiometry within protein complexes using absolute quantification and multiple reaction monitoring. Anal. Chem. 82(7), 2784-2796 (2010).
    • (2010) Anal. Chem. , vol.82 , Issue.17 , pp. 2784-2796
    • Schmidt, C.1    Lenz, C.2    Grote, M.3    Lührmann, R.4    Urlaub, H.5
  • 21
    • 66149182998 scopus 로고    scopus 로고
    • Mass spectrometry-based absolute quantification of microsomal cytochrome P450 2D6 in human liver
    • Langenfeld E, Zanger UM, Jung K, Meyer HE, Marcus K. Mass spectrometry-based absolute quantification of microsomal cytochrome P450 2D6 in human liver. Proteomics 9(9), 2313-2323 (2009).
    • (2009) Proteomics , vol.9 , Issue.9 , pp. 2313-2323
    • Langenfeld, E.1    Zanger, U.M.2    Jung, K.3    Meyer, H.E.4    Marcus, K.5
  • 22
    • 63049107227 scopus 로고    scopus 로고
    • Quantifying proteins by mass spectrometry: The selectivity of SRM is only part of the problem
    • Duncan MW, Yergey AL, Patterson SD. Quantifying proteins by mass spectrometry: the selectivity of SRM is only part of the problem. Proteomics 9(5), 1124-1127 (2009).
    • (2009) Proteomics , vol.9 , Issue.5 , pp. 1124-1127
    • Duncan, M.W.1    Yergey, A.L.2    Patterson, S.D.3
  • 23
    • 37249028629 scopus 로고    scopus 로고
    • LC-MS/MS approach for quantification of therapeutic proteins in plasma using a protein internal standard and 2D-solid-phase extraction cleanup
    • DOI 10.1021/ac0712502
    • Yang Z, Hayes M, Fang X et al. LC-MS/MS approach for quantification of therapeutic proteins in plasma using a protein internal standard and 2D-solid-phase extraction cleanup. Anal. Chem. 79(24), 9294-9301 (2007). (Pubitemid 350276306)
    • (2007) Analytical Chemistry , vol.79 , Issue.24 , pp. 9294-9301
    • Yang, Z.1    Hayes, M.2    Fang, X.3    Daley, M.P.4    Effenberg, S.5    Tse, F.L.S.6
  • 24
    • 33645715370 scopus 로고    scopus 로고
    • Multiple reaction monitoring as a method for identifying protein posttranslational modifications
    • Cox DM, Zhong F, Du M, Duchoslav E, Sakuma T, McDermott JC. Multiple reaction monitoring as a method for identifying protein posttranslational modifications. J. Biomol. Tech. 16(2), 83-90 (2005).
    • (2005) J. Biomol. Tech. , vol.16 , Issue.2 , pp. 83-90
    • Cox, D.M.1    Zhong, F.2    Du, M.3    Duchoslav, E.4    Sakuma, T.5    McDermott, J.C.6
  • 28
    • 43049117162 scopus 로고    scopus 로고
    • Mass spectrometry for studying the interaction between small molecules and proteins
    • DOI 10.2174/157016408783955128
    • Calvo E, Camafeita E, Diaz JF, Lopez JA. Mass spectrometry for studying the interaction between small molecules and proteins. Curr. Proteomics 5(1), 20-34 (2008). (Pubitemid 351632299)
    • (2008) Current Proteomics , vol.5 , Issue.1 , pp. 20-34
    • Calvo, E.1    Camafeita, E.2    Diaz, J.F.3    Lopez, J.A.4
  • 29
    • 66749165277 scopus 로고    scopus 로고
    • A sensitive mass spectrometric method for hypothesis-driven detection of peptide post-translational modifications: Multiple reaction monitoring-initiated detection and sequencing (MIDAS)
    • Unwin RD, Griffiths JR, Whetton AD. A sensitive mass spectrometric method for hypothesis-driven detection of peptide post-translational modifications: multiple reaction monitoring-initiated detection and sequencing (MIDAS). Nat. Protoc. 4(6), 870-877 (2009).
    • (2009) Nat. Protoc. , vol.4 , Issue.6 , pp. 870-877
    • Unwin, R.D.1    Griffiths, J.R.2    Whetton, A.D.3
  • 31
    • 70349440955 scopus 로고    scopus 로고
    • 15 deoxi-d12,14-prostaglandin J2 is a tubulin-binding agent that destabilizes microtubules and induces mitotic arrest
    • Cocca C, Dorado J, Calvo E, Lopez JA, Santos A, Perez-Castillo A. 15 deoxi-d12,14-prostaglandin J2 is a tubulin-binding agent that destabilizes microtubules and induces mitotic arrest. Biochem. Pharmacol. 78(10), 1330-1339 (2009).
    • (2009) Biochem. Pharmacol. , vol.78 , Issue.10 , pp. 1330-1339
    • Cocca, C.1    Dorado, J.2    Calvo, E.3    Lopez, J.A.4    Santos, A.5    Perez-Castillo, A.6
  • 32
    • 0035298820 scopus 로고    scopus 로고
    • Detection of tyrosine phosphorylated peptides by precursor ion scanning quadrupole TOF mass spectrometry in positive ion mode
    • DOI 10.1021/ac001318c
    • Steen K, Küster B, Fernandez M, Pandey A, Mann M. Detection of tyrosine phosphorylated peptides by precursor ion scanning quadrupole TOF mass spectrometry in positive ion mode. Anal. Chem. 73(7), 1440-1448 (2001). (Pubitemid 32896198)
    • (2001) Analytical Chemistry , vol.73 , Issue.7 , pp. 1440-1448
    • Steen, H.1    Kuster, B.2    Fernandez, M.3    Pandey, A.4    Mann, M.5
  • 33
    • 33645721632 scopus 로고    scopus 로고
    • Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins
    • Anderson L, Hunter CL. Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins. Mol. Cell. Proteomics 5(4), 573-588 (2006).
    • (2006) Mol. Cell. Proteomics , vol.5 , Issue.4 , pp. 573-588
    • Anderson, L.1    Hunter, C.L.2
  • 34
    • 33747030845 scopus 로고    scopus 로고
    • Protein biomarker discovery and validation: The long and uncertain path to clinical utility
    • DOI 10.1038/nbt1235, PII NBT1235
    • Rifai N, Gillette MA, Carr SA. Protein biomarker discovery and validation: the long and uncertain path to clinical utility. Nat. Biotechnol. 24(8), 971-983 (2006). (Pubitemid 44215392)
    • (2006) Nature Biotechnology , vol.24 , Issue.8 , pp. 971-983
    • Rifai, N.1    Gillette, M.A.2    Carr, S.A.3
  • 35
    • 23044439399 scopus 로고    scopus 로고
    • Multidimensional protein identification technology (MudPIT): Technical overview of a profiling method optimized for the comprehensive proteomic investigation of normal and diseased heart tissue
    • DOI 10.1016/j.jasms.2005.02.015, PII S1044030505001649
    • Kislinger T, Gramolini AO, MacLennan DH, Emili A. Multidimensional protein identification technology (MudPIT): technical overview of a profiling method optimized for the comprehensive proteomic investigation of normal and diseased heart tissue. J. Am. Soc. Mass Spectrom. 16(8), 1207-1220 (2005). (Pubitemid 41059557)
    • (2005) Journal of the American Society for Mass Spectrometry , vol.16 , Issue.8 , pp. 1207-1220
    • Kislinger, T.1    Gramolini, A.O.2    MacLennan, D.H.3    Emili, A.4
  • 36
    • 44849103670 scopus 로고    scopus 로고
    • Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery
    • Isserlin R, Emili A. Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery. Curr. Opin. Mol. Ther. 10(3), 231-242 (2008). (Pubitemid 351799274)
    • (2008) Current Opinion in Molecular Therapeutics , vol.10 , Issue.3 , pp. 231-242
    • Isserlin, R.1    Emili, A.2
  • 37
    • 43049090085 scopus 로고    scopus 로고
    • Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring
    • Lange V, Malmstrom JA, Didion J et al. Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring. Mol. Cell. Proteomics 7(8), 1489-1500 (2008).
    • (2008) Mol. Cell. Proteomics , vol.7 , Issue.8 , pp. 1489-1500
    • Lange, V.1    Malmstrom, J.A.2    Didion, J.3
  • 38
    • 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 TA, Burgess M, Kuhn E, Carr SA. Quantitative, multiplexed assays for low abundance proteins in plasma by targeted mass spectrometry and stable isotope dilution. Mol. Cell. Proteomics 6(12), 2212-2229 (2007).
    • (2007) Mol. Cell. Proteomics , vol.6 , Issue.12 , pp. 2212-2229
    • Keshishian, H.1    Addona, T.A.2    Burgess, M.3    Kuhn, E.4    Carr, S.A.5
  • 39
    • 77954573328 scopus 로고    scopus 로고
    • Combination of improved 18O incorporation and multiple reaction monitoring: A universal strategy for absolute quantitative verification of serum candidate biomarkers of liver cancer
    • Zhao Y, Jia W, Sun W et al. Combination of improved 18O incorporation and multiple reaction monitoring: a universal strategy for absolute quantitative verification of serum candidate biomarkers of liver cancer. J. Proteome Res. 9(6), 3319-3327 (2010).
    • (2010) J. Proteome Res. , vol.9 , Issue.16 , pp. 3319-3327
    • Zhao, Y.1    Jia, W.2    Sun, W.3
  • 40
    • 67650564834 scopus 로고    scopus 로고
    • Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
    • Addona TA, Abbatiello SE, Schilling B et al. Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat. Biotechnol. 27(7), 633-641 (2009).
    • (2009) Nat. Biotechnol. , vol.27 , Issue.7 , pp. 633-641
    • Addona, T.A.1    Abbatiello, S.E.2    Schilling, B.3
  • 41
    • 70549113220 scopus 로고    scopus 로고
    • Perspectives of targeted mass spectrometry for protein biomarker verification
    • Huttenhain R, Malmström J, Picotti P, Aebersold R. Perspectives of targeted mass spectrometry for protein biomarker verification. Curr. Opin. Chem. Biol. 13(5-6), 518-525 (2009).
    • (2009) Curr. Opin. Chem. Biol. , vol.13 , Issue.5-6 , pp. 518-525
    • Huttenhain, R.1    Malmström, J.2    Picotti, P.3    Aebersold, R.4
  • 42
    • 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 et al. Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution. Mol. Cell. Proteomics 8(10), 2339-2349 (2009).
    • (2009) Mol. Cell. Proteomics , vol.8 , Issue.10 , pp. 2339-2349
    • Keshishian, H.1    Addona, T.2    Burgess, M.3
  • 43
    • 67650467358 scopus 로고    scopus 로고
    • Biomarker validation by targeted mass spectrometry
    • McIntosh M, Fitzgibbon M. Biomarker validation by targeted mass spectrometry. Nat. Biotechnol. 27(7), 622-623 (2009).
    • (2009) Nat. Biotechnol. , vol.27 , Issue.7 , pp. 622-623
    • McIntosh, M.1    Fitzgibbon, M.2
  • 45
    • 51249117296 scopus 로고    scopus 로고
    • If the antibody fails - A mass western approach
    • Lehmann U, Wienkoop S, Tschoep H, Weckwerth W. If the antibody fails - a mass western approach. Plant J. 55(6), 1039-1046 (2008).
    • (2008) Plant J. , vol.55 , Issue.6 , pp. 1039-1046
    • Lehmann, U.1    Wienkoop, S.2    Tschoep, H.3    Weckwerth, W.4
  • 47
    • 64549125924 scopus 로고    scopus 로고
    • Multiple reaction monitoring for quantitative biomarker analysis in proteomics and metabolomics
    • Addona TA, Abbatiello SE, Schilling B et al. Multiple reaction monitoring for quantitative biomarker analysis in proteomics and metabolomics. J. Chromatog. B. Anal. Technol. Biomed. Life Sci. 877(13), 1229-1239 (2009).
    • (2009) J. Chromatog. B. Anal. Technol. Biomed. Life Sci. , vol.877 , Issue.13 , pp. 1229-1239
    • Addona, T.A.1    Abbatiello, S.E.2    Schilling, B.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.