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Volumn 8, Issue 7, 2009, Pages 3653-3665

Global quantitative proteomic profiling through 18O-labeling in combination with MS/MS spectra analysis

Author keywords

Labeling; Mixture 18O; Peptide; Profiling; Protein; Proteomics; Quantitation; Software; Stable isotope; Tandem mass spectrometry

Indexed keywords

OXYGEN 18;

EID: 67650388719     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr8009098     Document Type: Article
Times cited : (20)

References (41)
  • 1
    • 0035106351 scopus 로고    scopus 로고
    • Large-scale analysis of the yeast proteome by multidimensional protein identification technology
    • Washburn, M. P.; Wolters, D.; Yates, J. R., III. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19, 242.
    • (2001) Nat. Biotechnol , vol.19 , pp. 242
    • Washburn, M.P.1    Wolters, D.2    Yates III, J.R.3
  • 2
    • 33645993265 scopus 로고    scopus 로고
    • Global survey of organ and organelle protein expression in mouse: Combined proteomic and transcriptomic profiling
    • Kislinger, T.; Cox, B.; Wigle, D. A.; Brown, K.; Okubo, T.; Hogan, B.; Jurisica, I.; Frey, B.; Rossant, J.; Emili, A. Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profiling. Cell 2006, 125, 173.
    • (2006) Cell , vol.125 , pp. 173
    • Kislinger, T.1    Cox, B.2    Wigle, D.A.3    Brown, K.4    Okubo, T.5    Hogan, B.6    Jurisica, I.7    Frey, B.8    Rossant, J.9    Emili, A.10
  • 4
    • 0037274597 scopus 로고    scopus 로고
    • Large scale identification of Caenorhabditis elegans proteins by multidimensional liquid chromatography-tandem mass spectrometry
    • Mawuenyega, K. G.; Kaji, H.; Yamuchi, Y.; Shinkawa, T.; Saito, H.; Taoka, M.; Takahashi, N.; Isobe, T. Large scale identification of Caenorhabditis elegans proteins by multidimensional liquid chromatography-tandem mass spectrometry. J. Proteome Res. 2003, 2, 23.
    • (2003) J. Proteome Res , vol.2 , pp. 23
    • Mawuenyega, K.G.1    Kaji, H.2    Yamuchi, Y.3    Shinkawa, T.4    Saito, H.5    Taoka, M.6    Takahashi, N.7    Isobe, T.8
  • 6
    • 3242731195 scopus 로고    scopus 로고
    • A model for random sampling and estimation of relative protein abundance in shotgun proteomics
    • Liu, H.; Sadygov, R. G.; Yates, J. R., III. A model for random sampling and estimation of relative protein abundance in shotgun proteomics. Anal. Chem. 2004, 76, 4193.
    • (2004) Anal. Chem , vol.76 , pp. 4193
    • Liu, H.1    Sadygov, R.G.2    Yates III, J.R.3
  • 7
    • 0036583926 scopus 로고    scopus 로고
    • Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
    • Ong, S. E.; Blagoev, B.; Kratchmarova, I.; Kristensen, D. B.; Steen, H.; Pandey, A.; Mann, M. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 2002, 1, 376.
    • (2002) Mol. Cell. Proteomics , vol.1 , pp. 376
    • Ong, S.E.1    Blagoev, B.2    Kratchmarova, I.3    Kristensen, D.B.4    Steen, H.5    Pandey, A.6    Mann, M.7
  • 8
    • 0032875697 scopus 로고    scopus 로고
    • Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
    • Gygi, S. P.; Rist, B.; Gerber, S. A.; Turecok, F.; Gelb, M. H.; Aebersold, R. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 1999, 17, 994.
    • (1999) Nat. Biotechnol , vol.17 , pp. 994
    • Gygi, S.P.1    Rist, B.2    Gerber, S.A.3    Turecok, F.4    Gelb, M.H.5    Aebersold, R.6
  • 11
  • 12
    • 33846105280 scopus 로고    scopus 로고
    • 18O-labeling strategies for quantitative proteomics
    • 18O-labeling strategies for quantitative proteomics. Mass Spectrom. Rev. 2007, 26, 121.
    • (2007) Mass Spectrom. Rev , vol.26 , pp. 121
    • Miyagi, M.1    Rao, K.C.2
  • 13
    • 0030068923 scopus 로고    scopus 로고
    • 18O into peptide fragments and its application for protein sequencing by electrospray and matrix-assisted laser desorption/ionization mass spectrometry
    • 18O into peptide fragments and its application for protein sequencing by electrospray and matrix-assisted laser desorption/ionization mass spectrometry. Electrophoresis 1996, 17, 945.
    • (1996) Electrophoresis , vol.17 , pp. 945
    • Schnolzer, M.1    Jedrzejewski, P.2    Lehmann, W.D.3
  • 14
    • 0036391333 scopus 로고    scopus 로고
    • 18O labeling for comparative proteomics: Evaluation of endoprotease Glu-C as the catalytic agent
    • 18O labeling for comparative proteomics: evaluation of endoprotease Glu-C as the catalytic agent. J. Proteome Res. 2002, 1, 27.
    • (2002) J. Proteome Res , vol.1 , pp. 27
    • Reynolds, K.J.1    Yao, X.2    Fenselau, C.3
  • 16
    • 27644543078 scopus 로고    scopus 로고
    • Old, W. M.; Meyer-Arendt, K.; veline-Wolf, L.; Pierce, K. G.; Mendoza, A.; Sevinsky, J. R.; Resing, K. A.; Ahn, N. G. Comparison of label-free methods for quantifying human proteins by shotgun proteomics. Mol. Cell. Proteomics 2005, 4, 1487.
    • Old, W. M.; Meyer-Arendt, K.; veline-Wolf, L.; Pierce, K. G.; Mendoza, A.; Sevinsky, J. R.; Resing, K. A.; Ahn, N. G. Comparison of label-free methods for quantifying human proteins by shotgun proteomics. Mol. Cell. Proteomics 2005, 4, 1487.
  • 17
    • 0038149547 scopus 로고    scopus 로고
    • 18O exchange for comparative proteomics: Tandem mass spectrometry comparison using MALDI-TOF, ESI-QTOF, and ESI-Ion trap mass spectrometers
    • 18O exchange for comparative proteomics: Tandem mass spectrometry comparison using MALDI-TOF, ESI-QTOF, and ESI-Ion trap mass spectrometers. J. Am. Soc. Mass Spectrom. 2003, 14, 704.
    • (2003) J. Am. Soc. Mass Spectrom , vol.14 , pp. 704
    • Heller, M.1    Mattou, H.2    Menzel, C.3    Yao, X.4
  • 18
    • 33644669753 scopus 로고    scopus 로고
    • Automated comparative proteomics based on multiplex tandem mass spectrometry and stable isotope labeling
    • Zhang, G.; Neubert, T. A. Automated comparative proteomics based on multiplex tandem mass spectrometry and stable isotope labeling. Mol. Cell. Proteomics 2006, 5, 401.
    • (2006) Mol. Cell. Proteomics , vol.5 , pp. 401
    • Zhang, G.1    Neubert, T.A.2
  • 19
    • 55949099548 scopus 로고    scopus 로고
    • Stable isotope labeling tandem mass spectrometry (SILT): Integration with peptide identification and extension to data-dependent scans
    • Elbert, D. L.; Mawuenyega, K. G.; Scott, E. A.; Wildsmith, K. R.; Bateman, R. J. Stable isotope labeling tandem mass spectrometry (SILT): Integration with peptide identification and extension to data-dependent scans. J. Proteome Res. 2008, 7, 4546.
    • (2008) J. Proteome Res , vol.7 , pp. 4546
    • Elbert, D.L.1    Mawuenyega, K.G.2    Scott, E.A.3    Wildsmith, K.R.4    Bateman, R.J.5
  • 20
    • 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.
    • (2004) Nat. Methods , vol.1 , pp. 39
    • Venable, J.D.1    Dong, M.Q.2    Wohlschlegel, J.3    Dillin, A.4    Yates, J.R.5
  • 22
    • 0035582244 scopus 로고    scopus 로고
    • An automated multidimensional protein identification technology for shotgun proteomics
    • Wolters, D. A.; Washburn, M. P.; Yates, J. R., III. An automated multidimensional protein identification technology for shotgun proteomics. Anal. Chem. 2001, 73, 5683.
    • (2001) Anal. Chem , vol.73 , pp. 5683
    • Wolters, D.A.1    Washburn, M.P.2    Yates III, J.R.3
  • 23
    • 0000857494 scopus 로고
    • An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
    • Eng, J. K.; McCormack, A. L.; Yates, J. R., III. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 1994, 5, 976.
    • (1994) J. Am. Soc. Mass Spectrom , vol.5 , pp. 976
    • Eng, J.K.1    McCormack, A.L.2    Yates III, J.R.3
  • 24
    • 0036393898 scopus 로고    scopus 로고
    • DTASelect and Contrast: Tools for assembling and comparing protein identifications from shotgun proteomics
    • Tabb, D. L.; McDonald, W. H.; Yates, J. R., III. DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics. J. Proteome Res. 2002, 1, 21.
    • (2002) J. Proteome Res , vol.1 , pp. 21
    • Tabb, D.L.1    McDonald, W.H.2    Yates III, J.R.3
  • 25
    • 0033434080 scopus 로고    scopus 로고
    • Probability-based protein identification by searching sequence databases using mass spectrometry data
    • Perkins, D. N.; Pappin, D. J.; Creasy, D. M.; Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20, 3551.
    • (1999) Electrophoresis , vol.20 , pp. 3551
    • Perkins, D.N.1    Pappin, D.J.2    Creasy, D.M.3    Cottrell, J.S.4
  • 28
    • 13244262721 scopus 로고    scopus 로고
    • 18O-labeling quantitative proteomics using an ion trap mass spectrometer
    • 18O-labeling quantitative proteomics using an ion trap mass spectrometer. Proteomics 2005, 5, 16.
    • (2005) Proteomics , vol.5 , pp. 16
    • Sakai, J.1    Kojima, S.2    Yanagi, K.3    Kanaoka, M.4
  • 29
    • 0037277179 scopus 로고    scopus 로고
    • Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large scale protein analysis: The yeast proteome
    • Peng, J.; Elias, J. E.; Thoreen, C. C.; Licklider, L. J.; Gygi, S. P. Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large scale protein analysis: the yeast proteome. J. Proteome Res. 2003, 2, 43.
    • (2003) J. Proteome Res , vol.2 , pp. 43
    • Peng, J.1    Elias, J.E.2    Thoreen, C.C.3    Licklider, L.J.4    Gygi, S.P.5
  • 30
    • 0036209134 scopus 로고    scopus 로고
    • Qscore: An algorithm for evaluating SEQUEST database search results
    • Moore, R. E.; Young, M. K.; Lee, T. D. Qscore: an algorithm for evaluating SEQUEST database search results. J. Am. Soc. Mass Spectrom. 2002, 13, 378.
    • (2002) J. Am. Soc. Mass Spectrom , vol.13 , pp. 378
    • Moore, R.E.1    Young, M.K.2    Lee, T.D.3
  • 31
    • 0038175144 scopus 로고    scopus 로고
    • Zeeburg, B. R.; Feng, W.; Wang, G.; Wang, M. D.; Fojo, A. T.; Sunshine, M.; Narasimhan, S.; Kane, D. W.; Reinhold, W. C.; Lababidi, S.; Bussey, K. J.; Riss, J.; Barrett, J. C.; Weinstein, J. N. GoMiner: a resource for biological interpretation of genomic and proteomic data. GenomeBiology 2003, 4, R28.
    • Zeeburg, B. R.; Feng, W.; Wang, G.; Wang, M. D.; Fojo, A. T.; Sunshine, M.; Narasimhan, S.; Kane, D. W.; Reinhold, W. C.; Lababidi, S.; Bussey, K. J.; Riss, J.; Barrett, J. C.; Weinstein, J. N. GoMiner: a resource for biological interpretation of genomic and proteomic data. GenomeBiology 2003, 4, R28.
  • 32
    • 85142176196 scopus 로고    scopus 로고
    • Maere, S.; Heymans, K.; Kuiper, M. BiNGO: a Cytoscape plug-in to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 2005, 21, 3448.
    • Maere, S.; Heymans, K.; Kuiper, M. BiNGO: a Cytoscape plug-in to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 2005, 21, 3448.
  • 34
    • 33845461566 scopus 로고    scopus 로고
    • A clean, more efficient method for in-solution digestion of protein mixtures without detergent or urea
    • Kim, S. C.; Chen, Y.; Mirza, S.; Xu, Y.; Lee, J.; Liu, P.; Zhao, Y. A clean, more efficient method for in-solution digestion of protein mixtures without detergent or urea. J. Proteome Res. 2006, 5, 3446.
    • (2006) J. Proteome Res , vol.5 , pp. 3446
    • Kim, S.C.1    Chen, Y.2    Mirza, S.3    Xu, Y.4    Lee, J.5    Liu, P.6    Zhao, Y.7
  • 35
    • 84994800753 scopus 로고    scopus 로고
    • Isotopic compositions of the elements
    • Rosman, K. J. R.; Taylor, P. D. P. Isotopic compositions of the elements. Pure Appl. Chem. 1998, 70, 217.
    • (1998) Pure Appl. Chem , vol.70 , pp. 217
    • Rosman, K.J.R.1    Taylor, P.D.P.2
  • 36
    • 33845519205 scopus 로고    scopus 로고
    • Fragmentation of singly protonated peptides via a combination of infrared and collisional activation
    • Dodds, E. D.; Hagerman, P. J.; Labrilla, C. B. Fragmentation of singly protonated peptides via a combination of infrared and collisional activation. Anal. Chem. 2006, 78, 8506.
    • (2006) Anal. Chem , vol.78 , pp. 8506
    • Dodds, E.D.1    Hagerman, P.J.2    Labrilla, C.B.3
  • 40
    • 27744469683 scopus 로고    scopus 로고
    • ProbIDtree: An automated software program capable of identifying multiple peptides from a single collision-induced dissociation spectrum collected by a tandem mass spectrometer
    • Zhang, N.; Li, X. J.; Pan, S.; Schwikowski, B.; Aebersold, R. ProbIDtree: an automated software program capable of identifying multiple peptides from a single collision-induced dissociation spectrum collected by a tandem mass spectrometer. Proteomics 2005, 5, 4096.
    • (2005) Proteomics , vol.5 , pp. 4096
    • Zhang, N.1    Li, X.J.2    Pan, S.3    Schwikowski, B.4    Aebersold, R.5
  • 41
    • 54349102503 scopus 로고    scopus 로고
    • Sequential interval motif search: Unrestricted database surveys of global MS/MS data sets for detection of putative post-translational modifications
    • Liu, J.; Erassov, A.; Halina, P.; Canote, M.; Nguyen, D. V.; Chung, C.; Cagney, G.; Ignatchenko, A.; Fong, V.; Emili, A. Sequential interval motif search: unrestricted database surveys of global MS/MS data sets for detection of putative post-translational modifications. Anal. Chem. 2008, 80, 7846.
    • (2008) Anal. Chem , vol.80 , pp. 7846
    • Liu, J.1    Erassov, A.2    Halina, P.3    Canote, M.4    Nguyen, D.V.5    Chung, C.6    Cagney, G.7    Ignatchenko, A.8    Fong, V.9    Emili, A.10


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