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1
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0032784646
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Proteomics: Quantitative and physical mapping of cellular proteins
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Blackstock W.P., Weir M.P. Proteomics: quantitative and physical mapping of cellular proteins. Trends Biotechnol. 17:1999;121-127.
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Trends Biotechnol
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Blackstock, W.P.1
Weir, M.P.2
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2
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0016711037
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High resolution two-dimensional electrophoresis of proteins
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J Biol Chem
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O'Farrell, P.H.1
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0028824080
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Mass spectrometric approaches for the identification of gel-separated proteins
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Aebersold, R.2
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4
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10544244161
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Linking genome and proteome by mass spectrometry: Large-scale identification of yeast proteins from two dimensional gels
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Shevchenko A., Jensen O.N., Podtelejnikov A.V., Sagliocco F., Wilm M., Vorm O., Mortensen P., Shevchenko A., Boucherie H., Mann M. Linking genome and proteome by mass spectrometry: large-scale identification of yeast proteins from two dimensional gels. Proc Natl Acad Sci USA. 93:1996;14440-14445.
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Shevchenko, A.1
Jensen, O.N.2
Podtelejnikov, A.V.3
Sagliocco, F.4
Wilm, M.5
Vorm, O.6
Mortensen, P.7
Shevchenko, A.8
Boucherie, H.9
Mann, M.10
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5
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0034662907
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Evaluation of two-dimensional gel electrophoresis based proteome analysis technology
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in press. This paper thoroughly assesses 2D-gel-based proteome analysis. The paper examines the classes of proteins identified from 2D gels and concludes that low-abundance proteins can not be detected from proteome analysis of unfractionated cell lysates.
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Gygi S.G., Corthals G.L., Zhang Y., Rochon Y., Aebersold R. Evaluation of two-dimensional gel electrophoresis based proteome analysis technology. Proc Natl Acad Sci USA. 2000;. in press. This paper thoroughly assesses 2D-gel-based proteome analysis. The paper examines the classes of proteins identified from 2D gels and concludes that low-abundance proteins can not be detected from proteome analysis of unfractionated cell lysates.
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(2000)
Proc Natl Acad Sci USA
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Gygi, S.G.1
Corthals, G.L.2
Zhang, Y.3
Rochon, Y.4
Aebersold, R.5
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6
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0025763551
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Codon bias and gene expression
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Kurland C.G. Codon bias and gene expression. FEBS Lett. 285:1991;165-169.
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(1991)
FEBS Lett
, vol.285
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Kurland, C.G.1
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7
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0033968614
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The Yeast Proteome Database (YPD) and Caenorhabditis elegans Proteome Database (WormPD): Comprehensive resources for the organization and comparison of model organism protein information
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Costanzo M.C., Hogan J.D., Cusick M.E., Davis B.P., Fancher A.M., Hodges P.E., Kondu P., Lengieza C., Lew-Smith J.E., Lingner C.et al. The Yeast Proteome Database (YPD) and Caenorhabditis elegans Proteome Database (WormPD): comprehensive resources for the organization and comparison of model organism protein information. Nucleic Acids Res. 28:2000;73-76.
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Nucleic Acids Res
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Costanzo, M.C.1
Hogan, J.D.2
Cusick, M.E.3
Davis, B.P.4
Fancher, A.M.5
Hodges, P.E.6
Kondu, P.7
Lengieza, C.8
Lew-Smith, J.E.9
Lingner, C.10
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8
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0033016717
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Correlation between protein and mRNA abundance in yeast
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This paper examines gene expression on two levels: protein and mRNA. The classes and types of proteins identified are typical of 2DE experiments using total cell lysates.
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Gygi S.P., Rochon Y., Franza B.R., Aebersold R. Correlation between protein and mRNA abundance in yeast. Mol Cell Biol. 19:1999;1720-1730. This paper examines gene expression on two levels: protein and mRNA. The classes and types of proteins identified are typical of 2DE experiments using total cell lysates.
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(1999)
Mol Cell Biol
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, pp. 1720-1730
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Gygi, S.P.1
Rochon, Y.2
Franza, B.R.3
Aebersold, R.4
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9
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0032694167
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A sampling of the yeast proteome
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This paper examines gene expression on two levels: protein and mRNA. The classes and types of proteins identified are typical of 2DE experiments using total cell lysates.
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Futcher B., Latter G.I., Monardo P., McLaughlin C.S., Garrels J.I. A sampling of the yeast proteome. Mol Cell Biol. 19:1999;7357-7368. This paper examines gene expression on two levels: protein and mRNA. The classes and types of proteins identified are typical of 2DE experiments using total cell lysates.
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(1999)
Mol Cell Biol
, vol.19
, pp. 7357-7368
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Futcher, B.1
Latter, G.I.2
Monardo, P.3
McLaughlin, C.S.4
Garrels, J.I.5
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10
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0032848549
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Two-dimensional gel protein database of Saccharomyces cerevisiae (update 1999)
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Perrot M., Sagliocco F., Mini T., Monribot C., Schneider U., Shevchenko A., Mann M., Jeno P., Boucherie H. Two-dimensional gel protein database of Saccharomyces cerevisiae (update 1999). Electrophoresis. 20:1999;280-2298.
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Electrophoresis
, vol.20
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Perrot, M.1
Sagliocco, F.2
Mini, T.3
Monribot, C.4
Schneider, U.5
Shevchenko, A.6
Mann, M.7
Jeno, P.8
Boucherie, H.9
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11
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0030896621
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Prefractionation of protein samples prior to two-dimensional electrophoresis
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Corthals G.L., Molloy M.P., Herbert B.R., Williams K.L., Gooley A.A. Prefractionation of protein samples prior to two-dimensional electrophoresis. Electrophoresis. 18:1997;317-323.
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(1997)
Electrophoresis
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Corthals, G.L.1
Molloy, M.P.2
Herbert, B.R.3
Williams, K.L.4
Gooley, A.A.5
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12
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0033572464
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A luminescent ruthenium complex for ultrasensitive detection of proteins immobilized on membrane supports
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Berggren K., Steinberg T.H., Lauber W.M., Carroll J.A., Lopez M.F., Chernokalskaya E., Zieske L., Diwu Z., Haugland R.P., Patton W.F. A luminescent ruthenium complex for ultrasensitive detection of proteins immobilized on membrane supports. Anal Biochem. 276:1999;129-143.
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Anal Biochem
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Berggren, K.1
Steinberg, T.H.2
Lauber, W.M.3
Carroll, J.A.4
Lopez, M.F.5
Chernokalskaya, E.6
Zieske, L.7
Diwu, Z.8
Haugland, R.P.9
Patton, W.F.10
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13
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0032901252
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High sensitivity mass spectrometric methods for obtaining intact molecular weights from gel-separated proteins
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Loo J.A., Brown J., Critchley G., Mitchell C., Andrews P.C., Ogorzalek Loo R.R. High sensitivity mass spectrometric methods for obtaining intact molecular weights from gel-separated proteins. Electrophoresis. 20:1999;743-748.
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Electrophoresis
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Loo, J.A.1
Brown, J.2
Critchley, G.3
Mitchell, C.4
Andrews, P.C.5
Ogorzalek Loo, R.R.6
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14
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0033535961
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Accurate quantitation of protein expression and site-specific phosphorylation
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A significant paper demonstrating quantitative protein profiling of two different cell states in yeast using stable isotopes and MS.
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Oda Y., Huang K., Cross F.R., Cowburn D., Chait B.T. Accurate quantitation of protein expression and site-specific phosphorylation. Proc Natl Acad Sci USA. 96:1999;6591-6596. A significant paper demonstrating quantitative protein profiling of two different cell states in yeast using stable isotopes and MS.
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(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 6591-6596
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Oda, Y.1
Huang, K.2
Cross, F.R.3
Cowburn, D.4
Chait, B.T.5
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15
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0000857494
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An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
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Eng J., McCormack A.L., Yates J.R. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J Am Soc Mass Spectrom. 5:1994;976-989.
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J Am Soc Mass Spectrom
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Eng, J.1
McCormack, A.L.2
Yates, J.R.3
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16
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0028575316
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Error-tolerant identification of peptides in sequence databases by peptide sequence tags
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Mann M., Wilm M. Error-tolerant identification of peptides in sequence databases by peptide sequence tags. Anal Chem. 66:1994;4390-4399.
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Anal Chem
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Mann, M.1
Wilm, M.2
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17
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0031242798
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A strategy for rapid, high-confidence protein identification
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Qin J., Fenyo D., Zhao Y., Hall W.W., Chao D.M., Wilson C.J., Young R.A., Chait B.T. A strategy for rapid, high-confidence protein identification. Anal Chem. 69:1997;3995-4001.
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Anal Chem
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Qin, J.1
Fenyo, D.2
Zhao, Y.3
Hall, W.W.4
Chao, D.M.5
Wilson, C.J.6
Young, R.A.7
Chait, B.T.8
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18
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0029053727
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Rapid mass spectrometric peptide sequencing and mass matching for characterization of human melanoma proteins isolated by two-dimensional PAGE
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Clauser K.R., Hall S.C., Smith D.M., Webb J.W., Andrews L.E., Tran H.M., Epstein L.B., Burlingame A.L. Rapid mass spectrometric peptide sequencing and mass matching for characterization of human melanoma proteins isolated by two-dimensional PAGE. Proc Natl Acad Sci USA. 92:1995;5072-5076.
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Proc Natl Acad Sci USA
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Clauser, K.R.1
Hall, S.C.2
Smith, D.M.3
Webb, J.W.4
Andrews, L.E.5
Tran, H.M.6
Epstein, L.B.7
Burlingame, A.L.8
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19
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0001986284
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Sequencing the primordial soup
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A.L. Burlingame. Totowa: Humana Press. An excellent chapter covering the technical difficulties associated with large-scale peptide mixture analysis.
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Shabanowitz J., Settlage R.E., Marto J.A., Christian R.E., White F.M., Russo P.S., Martin S.E., Hunt D.F. Sequencing the primordial soup. Burlingame A.L. Mass Spectrometry in Biology and Medicine. 2000;163-177 Humana Press, Totowa. An excellent chapter covering the technical difficulties associated with large-scale peptide mixture analysis.
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(2000)
Mass Spectrometry in Biology and Medicine
, pp. 163-177
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Shabanowitz, J.1
Settlage, R.E.2
Marto, J.A.3
Christian, R.E.4
White, F.M.5
Russo, P.S.6
Martin, S.E.7
Hunt, D.F.8
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20
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0032009398
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Rapid protein identification using a microscale electrospray LC/MS system on an ion trap mass spectrometer
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Davis M.T., Lee T.D. Rapid protein identification using a microscale electrospray LC/MS system on an ion trap mass spectrometer. J Am Soc Mass Spectrom. 9:1998;194-201.
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(1998)
J Am Soc Mass Spectrom
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Davis, M.T.1
Lee, T.D.2
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21
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0033168694
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Data-dependent modulation of solid-phase extraction capillary electrophoresis for the analysis of complex peptide and phosphopeptide mixtures by tandem mass spectrometry: Application to endothelial nitric oxide synthase
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Figeys D., Corthals G.L., Gallis B., Goodlett D.R., Ducret A., Corson M.A., Aebersold R. Data-dependent modulation of solid-phase extraction capillary electrophoresis for the analysis of complex peptide and phosphopeptide mixtures by tandem mass spectrometry: application to endothelial nitric oxide synthase. Anal Chem. 71:1999;2279-2287.
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(1999)
Anal Chem
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Figeys, D.1
Corthals, G.L.2
Gallis, B.3
Goodlett, D.R.4
Ducret, A.5
Corson, M.A.6
Aebersold, R.7
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22
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0033051101
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Direct analysis of large protein complexes using mass spectrometry
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This paper presents a method for large-scale protein analysis that bypasses 2D gels by using 2D chromatography coupled online to a mass spectrometer.
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Link J., Eng J., Schieltz D.M., Carmack E., Mize G.J., Morris D.R., Garvik B.M., Yates J.R. Direct analysis of large protein complexes using mass spectrometry. Nat Biotechnol. 17:1999;676-682. This paper presents a method for large-scale protein analysis that bypasses 2D gels by using 2D chromatography coupled online to a mass spectrometer.
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(1999)
Nat Biotechnol
, vol.17
, pp. 676-682
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Link, J.1
Eng, J.2
Schieltz, D.M.3
Carmack, E.4
Mize, G.J.5
Morris, D.R.6
Garvik, B.M.7
Yates, J.R.8
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23
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0032846162
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Quantitative proteomics?
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Mann M. Quantitative proteomics? Nat Biotechnol. 17:1999;954-955.
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(1999)
Nat Biotechnol
, vol.17
, pp. 954-955
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Mann, M.1
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24
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0000568858
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Application of isotope dilution-mass spectrometry in clinical chemistry, pharmacokinetics, and toxicology
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De Leenheer A.P., Thienpont L.M. Application of isotope dilution-mass spectrometry in clinical chemistry, pharmacokinetics, and toxicology. Mass Spectrom Rev. 11:1992;249-307.
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Mass Spectrom Rev
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De Leenheer, A.P.1
Thienpont, L.M.2
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25
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0042432365
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High throughput proteome-wide precision measurements of protein expression using mass spectrometry
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A short paper demonstrating quantitative protein profiling where the expression ratios for 200 E. coli proteins were measured.
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Pasa-Tolic L., Jensen P.K., Anderson G.A., Lipton M.S., Peden K.K., Martinovic S., Tolic N., Bruce J.E., Smith R.D. High throughput proteome-wide precision measurements of protein expression using mass spectrometry. J Am Chem Soc. 121:1999;7949-7950. A short paper demonstrating quantitative protein profiling where the expression ratios for 200 E. coli proteins were measured.
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(1999)
J Am Chem Soc
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, pp. 7949-7950
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Pasa-Tolic, L.1
Jensen, P.K.2
Anderson, G.A.3
Lipton, M.S.4
Peden, K.K.5
Martinovic, S.6
Tolic, N.7
Bruce, J.E.8
Smith, R.D.9
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26
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0032875697
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Quantitative analysis of protein mixtures using isotope coded affinity tags
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A novel method using selective derivatization with stable isotopes to permit quantitative protein profiling. Quantitative protein expression profiles were performed on a large scale for yeast growing on either galactose or ethanol as a carbon source.
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Gygi S.P., Rist B., Gerber S.A., Turecek F., Gelb M.H., Aebersold R. Quantitative analysis of protein mixtures using isotope coded affinity tags. Nat Biotechnol. 17:1999;994-999. A novel method using selective derivatization with stable isotopes to permit quantitative protein profiling. Quantitative protein expression profiles were performed on a large scale for yeast growing on either galactose or ethanol as a carbon source.
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(1999)
Nat Biotechnol
, vol.17
, pp. 994-999
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Gygi, S.P.1
Rist, B.2
Gerber, S.A.3
Turecek, F.4
Gelb, M.H.5
Aebersold, R.6
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