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Volumn 26, Issue 11, 2015, Pages 1804-1813

Pivotal Role of Computers and Software in Mass Spectrometry - SEQUEST and 20 Years of Tandem MS Database Searching

Author keywords

Computers; Database searching; Proteomics; SEQUEST; Tandem mass spectrometry

Indexed keywords

COMPUTERS; DATABASE SYSTEMS; INFORMATION RETRIEVAL; MASS SPECTROMETRY; MOLECULAR BIOLOGY; PROTEINS; SEARCH ENGINES; SPECTROMETRY;

EID: 84957864457     PISSN: 10440305     EISSN: 18791123     Source Type: Journal    
DOI: 10.1007/s13361-015-1220-0     Document Type: Review
Times cited : (21)

References (95)
  • 1
    • 50549202723 scopus 로고
    • Computer-aided interpretation of high resolution mass spectra
    • Biemann, K., Mcmurray, W.: Computer-aided interpretation of high resolution mass spectra. Tetrahedron Lett. 6, 647-653 (1965)
    • (1965) Tetrahedron Lett. , vol.6 , pp. 647-653
    • Biemann, K.1    Mcmurray, W.2
  • 2
    • 33947332383 scopus 로고
    • Computer-aided correlation of metastable peaks in high-resolution mass spectrometry
    • 1:CAS:528:DyaF2sXitlClsw%3D%3D
    • Mancuso, N.R., Tsunakaw, S., Biemann, K.: Computer-aided correlation of metastable peaks in high-resolution mass spectrometry. Anal. Chem. 38, 1775-1779 (1966)
    • (1966) Anal. Chem. , vol.38 , pp. 1775-1779
    • Mancuso, N.R.1    Tsunakaw, S.2    Biemann, K.3
  • 3
    • 0001700589 scopus 로고
    • High-resolution mass spectra of compounds emerging from gas chromatograph
    • Watson, J.T., Biemann, K.: High-resolution mass spectra of compounds emerging from gas chromatograph. Anal. Chem. 36, 1135-1137 (1964)
    • (1964) Anal. Chem. , vol.36 , pp. 1135-1137
    • Watson, J.T.1    Biemann, K.2
  • 4
    • 0001378017 scopus 로고
    • Direct recording of high resolution mass spectra of gas chromatographic effluents
    • 1:CAS:528:DyaF2MXktlGitb4%3D
    • Watson, J.T., Biemann, K.: Direct recording of high resolution mass spectra of gas chromatographic effluents. Anal. Chem. 37, 844-859 (1965)
    • (1965) Anal. Chem. , vol.37 , pp. 844-859
    • Watson, J.T.1    Biemann, K.2
  • 5
    • 33947484191 scopus 로고
    • A general technique for collecting gas chromatographic fractions for introduction into mass spectrometer
    • 1:CAS:528:DyaF2MXkvVCjt7g%3D
    • Amy, J.W., Chait, E.M., Baitinger, W.E., McLafferty, F.W.: A general technique for collecting gas chromatographic fractions for introduction into mass spectrometer. Anal. Chem. 37, 1265-1266 (1965)
    • (1965) Anal. Chem. , vol.37 , pp. 1265-1266
    • Amy, J.W.1    Chait, E.M.2    Baitinger, W.E.3    McLafferty, F.W.4
  • 6
    • 33947338534 scopus 로고
    • Computer-aided interpretation of high-resolution mass spectra. 2. Amino acid sequence of peptides
    • 1:CAS:528:DyaF28XktlCqs7k%3D
    • Biemann, K., Cone, C., Webster, B.R.: Computer-aided interpretation of high-resolution mass spectra. 2. amino acid sequence of peptides. J. Am. Chem. Soc. 88, 2597-2598 (1966)
    • (1966) J. Am. Chem. Soc. , vol.88 , pp. 2597-2598
    • Biemann, K.1    Cone, C.2    Webster, B.R.3
  • 7
    • 0014007130 scopus 로고
    • Determination of the amino acid sequence in oligopeptides by computer interpretation of their high-resolution mass spectra
    • 1:CAS:528:DyaF2sXivFSlsA%3D%3D
    • Biemann, K., Cone, C., Webster, B.R., Arsenault, G.P.: Determination of the amino acid sequence in oligopeptides by computer interpretation of their high-resolution mass spectra. J. Am. Chem. Soc. 88, 5598-5606 (1966)
    • (1966) J. Am. Chem. Soc. , vol.88 , pp. 5598-5606
    • Biemann, K.1    Cone, C.2    Webster, B.R.3    Arsenault, G.P.4
  • 8
    • 4243984666 scopus 로고
    • Automatic reduction of high-resolution mass spectral data - Computer techniques for improved mass-measuring accuracy and resolution
    • Venkataraghaven, R., McLafferty, F.W., Amy, J.W.: Automatic reduction of high-resolution mass spectral data - computer techniques for improved mass-measuring accuracy and resolution. Anal. Chem. 39, 178-185 (1967)
    • (1967) Anal. Chem. , vol.39 , pp. 178-185
    • Venkataraghaven, R.1    McLafferty, F.W.2    Amy, J.W.3
  • 9
    • 4244001472 scopus 로고
    • A computer-compatible digital data acquisition system for fast-scanning single-focusing mass spectrometers
    • 1:CAS:528:DyaF2sXksFSitLo%3D
    • Hites, R.A., Biemann, K.: A computer-compatible digital data acquisition system for fast-scanning single-focusing mass spectrometers. Anal. Chem. 39, 965-970 (1967)
    • (1967) Anal. Chem. , vol.39 , pp. 965-970
    • Hites, R.A.1    Biemann, K.2
  • 10
    • 0001268634 scopus 로고
    • Identification and quantification of neutral fecal steroids by gas-liquid chromatography and mass spectrometry: Studies of human excretion during two dietary regimens
    • 1:CAS:528:DyaF2cXktFegsrg%3D
    • Eneroth, P., Hellstroem, K., Ryhage, R.: Identification and quantification of neutral fecal steroids by gas-liquid chromatography and mass spectrometry: studies of human excretion during two dietary regimens. J. Lipid. Res. 5, 245-262 (1964)
    • (1964) J. Lipid. Res. , vol.5 , pp. 245-262
    • Eneroth, P.1    Hellstroem, K.2    Ryhage, R.3
  • 11
    • 0001460884 scopus 로고
    • Reconstructed mass-spectra - Novel approach for utilization of gas chromatograph-mass-spectrometer data
    • 1:CAS:528:DyaE2cXlvVSqt70%3D
    • Biller, J.E., Biemann, K.: Reconstructed mass-spectra - novel approach for utilization of gas chromatograph-mass-spectrometer data. Anal. Lett. 7, 515-528 (1974)
    • (1974) Anal. Lett. , vol.7 , pp. 515-528
    • Biller, J.E.1    Biemann, K.2
  • 15
    • 0000349010 scopus 로고
    • Mass spectrometric analysis - Spectral data file utilizing machine filing and manual searching
    • 1:CAS:528:DyaF3cXpsVU%3D
    • Mclafferty, F.W., Gohlke, R.S.: Mass spectrometric analysis - spectral data file utilizing machine filing and manual searching. Anal. Chem. 31, 1160-1163 (1959)
    • (1959) Anal. Chem. , vol.31 , pp. 1160-1163
    • Mclafferty, F.W.1    Gohlke, R.S.2
  • 16
    • 84987012277 scopus 로고
    • User-oriented computer-searchable library of mass spectrometric literature references
    • 1:CAS:528:DyaE3MXot12itw%3D%3D
    • Hertz, H.S., Evans, D.A., Biemann, K.: User-oriented computer-searchable library of mass spectrometric literature references. Org. Mass Spectrom 4, 453-460 (1970)
    • (1970) Org. Mass Spectrom , vol.4 , pp. 453-460
    • Hertz, H.S.1    Evans, D.A.2    Biemann, K.3
  • 17
    • 0001403003 scopus 로고
    • Identification of mass spectra by computer-searching a file of known spectra
    • 1:CAS:528:DyaE3MXhsVOqtr0%3D
    • Hertz, H.S., Hites, R.A., Biemann, K.: Identification of mass spectra by computer-searching a file of known spectra. Anal. Chem. 43, 681-691 (1971)
    • (1971) Anal. Chem. , vol.43 , pp. 681-691
    • Hertz, H.S.1    Hites, R.A.2    Biemann, K.3
  • 18
    • 0000082285 scopus 로고
    • Computer-aided interpretation of mass-spectra. 3. Self-training interpretive and retrieval system
    • 1:CAS:528:DyaE3sXksF2jtrs%3D
    • Kwok, K.S., Venkatar, R., Mclaffer, F.W.: Computer-aided interpretation of mass-spectra. 3. Self-training interpretive and retrieval system. J. Am. Chem. Soc. 95, 4185-4194 (1973)
    • (1973) J. Am. Chem. Soc. , vol.95 , pp. 4185-4194
    • Kwok, K.S.1    Venkatar, R.2    Mclaffer, F.W.3
  • 19
    • 84985478030 scopus 로고
    • Computer identification of mass-spectra. 6. Probability-based matching of mass-spectra - Rapid identification of specific compounds in mixtures
    • 1:CAS:528:DyaE2MXmsl2isA%3D%3D
    • McLafferty, F.W., Hertel, R.H., Villwock, R.D.: Computer identification of mass-spectra. 6. Probability-based matching of mass-spectra - rapid identification of specific compounds in mixtures. Org. Mass Spectrom 9, 690-702 (1974)
    • (1974) Org. Mass Spectrom , vol.9 , pp. 690-702
    • McLafferty, F.W.1    Hertel, R.H.2    Villwock, R.D.3
  • 20
    • 0000355793 scopus 로고
    • Estimating probabilities of correct identification from results of mass spectral library searches
    • 1:CAS:528:DyaK2MXmtlShsA%3D%3D
    • Stein, S.E.: Estimating probabilities of correct identification from results of mass spectral library searches. J. Am. Soc. Mass Spectrom 5, 316-323 (1994)
    • (1994) J. Am. Soc. Mass Spectrom , vol.5 , pp. 316-323
    • Stein, S.E.1
  • 21
    • 0000881748 scopus 로고
    • Optimization and testing of mass spectral library search algorithms for compound identification
    • 1:CAS:528:DyaK2MXhtFGhsLk%3D
    • Stein, S.E., Scott, D.R.: Optimization and testing of mass spectral library search algorithms for compound identification. J. Am. Soc. Mass Spectrom 5, 859-866 (1994)
    • (1994) J. Am. Soc. Mass Spectrom , vol.5 , pp. 859-866
    • Stein, S.E.1    Scott, D.R.2
  • 23
    • 84875123279 scopus 로고    scopus 로고
    • Liquid chromatography quadrupole time-of-flight mass spectrometry characterization of metabolites guided by the METLIN database
    • 1:CAS:528:DC%2BC3sXisVGru7s%3D
    • Zhu, Z.J., Schultz, A.W., Wang, J., Johnson, C.H., Yannone, S.M., Patti, G.J., Siuzdak, G.: Liquid chromatography quadrupole time-of-flight mass spectrometry characterization of metabolites guided by the METLIN database. Nat. Protoc. 8, 451-460 (2013)
    • (2013) Nat. Protoc. , vol.8 , pp. 451-460
    • Zhu, Z.J.1    Schultz, A.W.2    Wang, J.3    Johnson, C.H.4    Yannone, S.M.5    Patti, G.J.6    Siuzdak, G.7
  • 24
    • 72449186517 scopus 로고    scopus 로고
    • FiehnLib - Mass spectral and retention index libraries for metabolomics based on quadrupole and time-of-flight gas chromatography/mass spectrometry
    • 1:CAS:528:DC%2BD1MXhsVGntrjP
    • Kind, T., Wohlgemuth, G., Lee do, Y., Lu, Y., Palazoglu, M., Shahbaz, S., Fiehn, O.: FiehnLib - mass spectral and retention index libraries for metabolomics based on quadrupole and time-of-flight gas chromatography/mass spectrometry. Anal. Chem. 81, 10038-10048 (2009)
    • (2009) Anal. Chem. , vol.81 , pp. 10038-10048
    • Kind, T.1    Wohlgemuth, G.2    Lee Do, Y.3    Lu, Y.4    Palazoglu, M.5    Shahbaz, S.6    Fiehn, O.7
  • 25
    • 79960981890 scopus 로고    scopus 로고
    • Applying in-silico retention index and mass spectra matching for identification of unknown metabolites in accurate mass GC-TOF mass spectrometry
    • 1:CAS:528:DC%2BC3MXotFSnsLg%3D
    • Kumari, S., Stevens, D., Kind, T., Denkert, C., Fiehn, O.: Applying in-silico retention index and mass spectra matching for identification of unknown metabolites in accurate mass GC-TOF mass spectrometry. Anal. Chem. 83, 5895-5902 (2011)
    • (2011) Anal. Chem. , vol.83 , pp. 5895-5902
    • Kumari, S.1    Stevens, D.2    Kind, T.3    Denkert, C.4    Fiehn, O.5
  • 26
    • 0015520806 scopus 로고
    • Applications of artificial intelligence for chemical inference. 8. An approach to the computer interpretation of the high resolution mass spectra of complex molecules. Structure elucidation of estrogenic steroids
    • 1:CAS:528:DyaE38XltFClsbY%3D
    • Smith, D.H., Buchanan, B.G., Engelmore, R.S., Duffield, A.M., Yeo, A., Feigenbaum, E.A., Lederberg, J., Djerassi, C.: Applications of artificial intelligence for chemical inference. 8. An approach to the computer interpretation of the high resolution mass spectra of complex molecules. Structure elucidation of estrogenic steroids. J. Am. Chem. Soc. 94, 5962-5971 (1972)
    • (1972) J. Am. Chem. Soc. , vol.94 , pp. 5962-5971
    • Smith, D.H.1    Buchanan, B.G.2    Engelmore, R.S.3    Duffield, A.M.4    Yeo, A.5    Feigenbaum, E.A.6    Lederberg, J.7    Djerassi, C.8
  • 27
    • 84908599465 scopus 로고    scopus 로고
    • MS2Analyzer: A software for small molecule substructure annotations from accurate tandem mass spectra
    • 1:CAS:528:DC%2BC2cXhs1CitLbK
    • Ma, Y., Kind, T., Yang, D., Leon, C., Fiehn, O.: MS2Analyzer: A software for small molecule substructure annotations from accurate tandem mass spectra. Anal. Chem. 86, 10724-10731 (2014)
    • (2014) Anal. Chem. , vol.86 , pp. 10724-10731
    • Ma, Y.1    Kind, T.2    Yang, D.3    Leon, C.4    Fiehn, O.5
  • 28
    • 78650737804 scopus 로고    scopus 로고
    • Advances in structure elucidation of small molecules using mass spectrometry
    • Kind, T., Fiehn, O.: Advances in structure elucidation of small molecules using mass spectrometry. Bioanal Rev 2, 23-60 (2010)
    • (2010) Bioanal Rev , vol.2 , pp. 23-60
    • Kind, T.1    Fiehn, O.2
  • 29
    • 0019084558 scopus 로고
    • Mass spectra of partial protein hydrolysates as a multiple phase check for long polypeptides deduced from DNA sequences: NH2-terminal segment of alanine tRNA synthetase
    • 1:CAS:528:DyaL3MXht1agsw%3D%3D
    • Herlihy, W.C., Royal, N.J., Biemann, K., Putney, S.D., Schimmel, P.R.: Mass spectra of partial protein hydrolysates as a multiple phase check for long polypeptides deduced from DNA sequences: NH2-terminal segment of alanine tRNA synthetase. Proc. Natl. Acad. Sci. U.S.A. 77, 6531-6535 (1980)
    • (1980) Proc. Natl. Acad. Sci. U.S.A. , vol.77 , pp. 6531-6535
    • Herlihy, W.C.1    Royal, N.J.2    Biemann, K.3    Putney, S.D.4    Schimmel, P.R.5
  • 30
    • 0017122041 scopus 로고
    • Amino acid sequencing by gas chromatography-mass spectrometry using perfluoro-dideuteroalkylated peptide derivatives. A Gas chromatographic retention indices
    • 1:CAS:528:DyaE28XkslCgu70%3D
    • Nau, H., Biemann, K.: Amino acid sequencing by gas chromatography-mass spectrometry using perfluoro-dideuteroalkylated peptide derivatives. A Gas chromatographic retention indices. Anal. Biochem. 73, 139-153 (1976)
    • (1976) Anal. Biochem. , vol.73 , pp. 139-153
    • Nau, H.1    Biemann, K.2
  • 31
    • 0019796394 scopus 로고
    • Fast atom bombardment of solids as an ion source in mass spectroscopy
    • 1:CAS:528:DyaL38XpsVCrtg%3D%3D
    • Barber, M., Bordoli, R.S., Sedgwick, R.D., Tyler, A.N.: Fast atom bombardment of solids as an ion source in mass spectroscopy. Nature 293, 270-275 (1981)
    • (1981) Nature , vol.293 , pp. 270-275
    • Barber, M.1    Bordoli, R.S.2    Sedgwick, R.D.3    Tyler, A.N.4
  • 32
    • 33845558412 scopus 로고
    • Sequence analysis of oligopeptides by secondary ion/collision activated dissociation mass spectrometry
    • 1:CAS:528:DyaL3MXkvFehtrc%3D
    • Hunt, D.F., Bone, W.M., Shabanowitz, J., Rhodes, J., Ballard, J.M.: Sequence analysis of oligopeptides by secondary ion/collision activated dissociation mass spectrometry. Anal. Chem. 53, 1704-1708 (1981)
    • (1981) Anal. Chem. , vol.53 , pp. 1704-1708
    • Hunt, D.F.1    Bone, W.M.2    Shabanowitz, J.3    Rhodes, J.4    Ballard, J.M.5
  • 33
    • 0019618203 scopus 로고
    • Sequence analysis of polypeptides by collision activated dissociation on a triple quadrupole mass spectrometer
    • 1:CAS:528:DyaL38XhsVehu7s%3D
    • Hunt, D.F., Buko, A.M., Ballard, J.M., Shabanowitz, J., Giordani, A.B.: Sequence analysis of polypeptides by collision activated dissociation on a triple quadrupole mass spectrometer. Biomed. Mass Spectrom 8, 397-408 (1981)
    • (1981) Biomed. Mass Spectrom , vol.8 , pp. 397-408
    • Hunt, D.F.1    Buko, A.M.2    Ballard, J.M.3    Shabanowitz, J.4    Giordani, A.B.5
  • 35
    • 84987398179 scopus 로고
    • Computer-aided peptide sequencing by fast-atom-bombardment mass-spectrometry
    • 1:CAS:528:DyaL28XltFWgtbw%3D
    • Ishikawa, K., Niwa, Y.: Computer-aided peptide sequencing by fast-atom-bombardment mass-spectrometry. Biomed. Environ. Mass 13, 373-380 (1986)
    • (1986) Biomed. Environ. Mass , vol.13 , pp. 373-380
    • Ishikawa, K.1    Niwa, Y.2
  • 36
    • 0024427490 scopus 로고
    • Computer-Program (SEQPEP) to aid in the interpretation of high-energy collision tandem mass-spectra of peptides
    • 1:CAS:528:DyaK3cXhvF2jtbg%3D
    • Johnson, R.S., Biemann, K.: Computer-Program (SEQPEP) to aid in the interpretation of high-energy collision tandem mass-spectra of peptides. Biomed. Environ. Mass 18, 945-957 (1989)
    • (1989) Biomed. Environ. Mass , vol.18 , pp. 945-957
    • Johnson, R.S.1    Biemann, K.2
  • 37
    • 0003597619 scopus 로고
    • A graphics display-oriented strategy for the amino-acid sequencing of peptides by tandem mass-spectrometry
    • 1:CAS:528:DyaL1cXjvVeltQ%3D%3D
    • Scoble, H.A., Biller, J.E., Biemann, K.: A graphics display-oriented strategy for the amino-acid sequencing of peptides by tandem mass-spectrometry. Fresenius Z. Anal. Chem. 327, 239-245 (1987)
    • (1987) Fresenius Z. Anal. Chem. , vol.327 , pp. 239-245
    • Scoble, H.A.1    Biller, J.E.2    Biemann, K.3
  • 38
    • 0022466255 scopus 로고
    • Analysis of the primary sequence of human myelin basic-protein peptide-1-44 and peptide-90-170 by fast-atom-bombardment mass-spectrometry
    • 1:CAS:528:DyaL28XltFSlu7s%3D
    • Scoble, H.A., Whitaker, J.N., Biemann, K.: Analysis of the primary sequence of human myelin basic-protein peptide-1-44 and peptide-90-170 by fast-atom-bombardment mass-spectrometry. J. Neurochem. 47, 614-616 (1986)
    • (1986) J. Neurochem. , vol.47 , pp. 614-616
    • Scoble, H.A.1    Whitaker, J.N.2    Biemann, K.3
  • 39
    • 0023399896 scopus 로고
    • Characterization by tandem mass-spectrometry of structural modifications in proteins
    • 1:CAS:528:DyaL2sXmtlagsLc%3D
    • Biemann, K., Scoble, H.A.: Characterization by tandem mass-spectrometry of structural modifications in proteins. Science 237, 992-998 (1987)
    • (1987) Science , vol.237 , pp. 992-998
    • Biemann, K.1    Scoble, H.A.2
  • 40
    • 84969437271 scopus 로고
    • What features of tyrosine aminotransferase determine its rapid rate of turnover in vivo
    • Hargrove, J.L., Scoble, H.A., Biemann, K.: What features of tyrosine aminotransferase determine its rapid rate of turnover in vivo. FASEB J 2, A565-A565 (1988)
    • (1988) FASEB J , vol.2 , pp. A565-A565
    • Hargrove, J.L.1    Scoble, H.A.2    Biemann, K.3
  • 41
    • 0022869691 scopus 로고
    • In vitro synthesis of alpha-carboxyl-linked folylpolyglutamates by an enzyme preparation from Escherichia coli
    • 1:CAS:528:DyaL2sXitV2l
    • Ferone, R., Singer, S.C., Hunt, D.F.: In vitro synthesis of alpha-carboxyl-linked folylpolyglutamates by an enzyme preparation from Escherichia coli. J. Biol. Chem. 261, 16363-16371 (1986)
    • (1986) J. Biol. Chem. , vol.261 , pp. 16363-16371
    • Ferone, R.1    Singer, S.C.2    Hunt, D.F.3
  • 44
    • 0023652860 scopus 로고
    • Amino acid sequence analysis of the neuronal type II calmodulin-dependent protein kinase by tandem mass spectrometry
    • 1:CAS:528:DyaL1cXltF2ruw%3D%3D
    • LeVine III, H., Hunt, D.F., Zhu, N.Z., Shabanowitz, J.: Amino acid sequence analysis of the neuronal type II calmodulin-dependent protein kinase by tandem mass spectrometry. Biochem. Biophys. Res. Commun. 148, 1104-1109 (1987)
    • (1987) Biochem. Biophys. Res. Commun. , vol.148 , pp. 1104-1109
    • LeVine, H.1    Hunt, D.F.2    Zhu, N.Z.3    Shabanowitz, J.4
  • 45
    • 0024296223 scopus 로고
    • Tandem mass spectrometry reveals that three photosystem II proteins of spinach chloroplasts contain N-acetyl-O-phosphothreonine at their NH2 termini
    • 1:CAS:528:DyaL1cXnt1eguw%3D%3D
    • Michel, H., Hunt, D.F., Shabanowitz, J., Bennett, J.: Tandem mass spectrometry reveals that three photosystem II proteins of spinach chloroplasts contain N-acetyl-O-phosphothreonine at their NH2 termini. J. Biol. Chem. 263, 1123-1130 (1988)
    • (1988) J. Biol. Chem. , vol.263 , pp. 1123-1130
    • Michel, H.1    Hunt, D.F.2    Shabanowitz, J.3    Bennett, J.4
  • 46
    • 0024438708 scopus 로고
    • Electrospray ionization for mass spectrometry of large biomolecules
    • 1:CAS:528:DyaL1MXmtFWhs7w%3D
    • Fenn, J.B., Mann, M., Meng, C.K., Wong, S.F., Whitehouse, C.M.: Electrospray ionization for mass spectrometry of large biomolecules. Science 246, 64-71 (1989)
    • (1989) Science , vol.246 , pp. 64-71
    • Fenn, J.B.1    Mann, M.2    Meng, C.K.3    Wong, S.F.4    Whitehouse, C.M.5
  • 47
    • 84994930431 scopus 로고
    • Combined liquid chromatography mass spectrometry. Part I Coupling by means of a moving belt interface
    • Patrick, A.: Combined liquid chromatography mass spectrometry. Part I Coupling by means of a moving belt interface. Mass Spectrom Rev. 8, 35-55 (1989)
    • (1989) Mass Spectrom Rev. , vol.8 , pp. 35-55
    • Patrick, A.1
  • 48
    • 0018875199 scopus 로고
    • Combined liquid chromatograph/mass spectrometer for involatile biological samples
    • 1:CAS:528:DyaL3cXmtFOmt7w%3D
    • Blakley, C.R., Carmody, J.C., Vestal, M.L.: Combined liquid chromatograph/mass spectrometer for involatile biological samples. Clin. Chem. 26, 1467-1473 (1980)
    • (1980) Clin. Chem. , vol.26 , pp. 1467-1473
    • Blakley, C.R.1    Carmody, J.C.2    Vestal, M.L.3
  • 49
    • 85045814739 scopus 로고
    • Editorial: Why sequence the human genome?
    • Editorial: Why sequence the human genome? Nature 331, 465 (1988)
    • (1988) Nature , vol.331 , pp. 465
  • 51
    • 0018267760 scopus 로고
    • The decline and fall of protein chemistry?
    • 1:STN:280:DyaE1M%2FhtVKjsQ%3D%3D
    • Malcolm, A.D.: The decline and fall of protein chemistry? Nature 275, 90-91 (1978)
    • (1978) Nature , vol.275 , pp. 90-91
    • Malcolm, A.D.1
  • 53
    • 84907363627 scopus 로고    scopus 로고
    • Schizophrenia genetics comes of age
    • 1:CAS:528:DC%2BC2cXhsV2jtbjF
    • Need, A.C., Goldstein, D.B.: Schizophrenia genetics comes of age. Neuron 83, 760-763 (2014)
    • (2014) Neuron , vol.83 , pp. 760-763
    • Need, A.C.1    Goldstein, D.B.2
  • 54
    • 0029688766 scopus 로고    scopus 로고
    • Sherpa: A Macintosh-based expert system for the interpretation of electrospray ionization LC/MS and MS/MS data from protein digests
    • 1:CAS:528:DyaK28XislWqsrw%3D
    • Taylor, J.A., Walsh, K.A., Johnson, R.S.: Sherpa: a Macintosh-based expert system for the interpretation of electrospray ionization LC/MS and MS/MS data from protein digests. Rapid. Commun. Mass Spectrom 10, 679-687 (1996)
    • (1996) Rapid. Commun. Mass Spectrom , vol.10 , pp. 679-687
    • Taylor, J.A.1    Walsh, K.A.2    Johnson, R.S.3
  • 55
    • 0035356977 scopus 로고    scopus 로고
    • Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry
    • 1:CAS:528:DC%2BD3MXjtFalurk%3D
    • Taylor, J.A., Johnson, R.S.: Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry. Anal. Chem. 73, 2594-2604 (2001)
    • (2001) Anal. Chem. , vol.73 , pp. 2594-2604
    • Taylor, J.A.1    Johnson, R.S.2
  • 56
    • 0026664454 scopus 로고
    • Peptides presented to the immune system by the murine class II major histocompatability complex molecule I-A
    • 1:CAS:528:DyaK38XltV2ltLg%3D
    • Hunt, D.F., Michel, H., Dickenson, T.A., Shabanowitz, J., Cox, A.L., Sakaguchi, K., Appella, E., Grey, H.M., Sette, A.: Peptides presented to the immune system by the murine class II major histocompatability complex molecule I-A. Science 256, 1817-1820 (1992)
    • (1992) Science , vol.256 , pp. 1817-1820
    • Hunt, D.F.1    Michel, H.2    Dickenson, T.A.3    Shabanowitz, J.4    Cox, A.L.5    Sakaguchi, K.6    Appella, E.7    Grey, H.M.8    Sette, A.9
  • 58
    • 0000857494 scopus 로고
    • An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
    • 1:CAS:528:DyaK2MXhvF2htLw%3D
    • 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 Spectrum 5, 976-989 (1994)
    • (1994) J. Am. Soc. Mass Spectrum , vol.5 , pp. 976-989
    • Eng, J.1    McCormack, A.L.2    Yates, J.R.3
  • 59
    • 0002991935 scopus 로고
    • Application of correlation analysis techniques to mass spectral data
    • Owens, K.G.: Application of correlation analysis techniques to mass spectral data. Appl Spectrosc. Rev. 27, 1-49 (1992)
    • (1992) Appl Spectrosc. Rev. , vol.27 , pp. 1-49
    • Owens, K.G.1
  • 60
    • 33645235084 scopus 로고    scopus 로고
    • Cross-correlation algorithm for calculation of peptide molecular weight from tandem mass spectra
    • 1:CAS:528:DC%2BD28XhtFKnsbY%3D
    • Venable, J.D., Xu, T., Cociorva, D., Yates, J.R.: Cross-correlation algorithm for calculation of peptide molecular weight from tandem mass spectra. Anal. Chem. 78, 1921-1929 (2006)
    • (2006) Anal. Chem. , vol.78 , pp. 1921-1929
    • Venable, J.D.1    Xu, T.2    Cociorva, D.3    Yates, J.R.4
  • 61
    • 1542617945 scopus 로고    scopus 로고
    • Statistical models for protein validation using tandem mass spectral data and protein amino acid sequence databases
    • 1:CAS:528:DC%2BD2cXht1Gjtbk%3D
    • Sadygov, R.G., Liu, H., Yates, J.R.: Statistical models for protein validation using tandem mass spectral data and protein amino acid sequence databases. Anal. Chem. 76, 1664-1671 (2004)
    • (2004) Anal. Chem. , vol.76 , pp. 1664-1671
    • Sadygov, R.G.1    Liu, H.2    Yates, J.R.3
  • 62
    • 55949085148 scopus 로고    scopus 로고
    • A fast SEQUEST cross correlation algorithm
    • 1:CAS:528:DC%2BD1cXhtVymtL7M
    • Eng, J.K., Fischer, B., Grossmann, J., Maccoss, M.J.: A fast SEQUEST cross correlation algorithm. J. Proteome. Res. 7, 4598-4602 (2008)
    • (2008) J. Proteome. Res. , vol.7 , pp. 4598-4602
    • Eng, J.K.1    Fischer, B.2    Grossmann, J.3    Maccoss, M.J.4
  • 63
    • 43949160021 scopus 로고
    • Capillary liquid chromatography/mass spectrometry for peptide and protein characterization methods
    • Davis, M.T., Stahl, D.C., Swiderek, K.M., Lee, T.D.: Capillary liquid chromatography/mass spectrometry for peptide and protein characterization methods. Methods 6, 304-314 (1994)
    • (1994) Methods , vol.6 , pp. 304-314
    • Davis, M.T.1    Stahl, D.C.2    Swiderek, K.M.3    Lee, T.D.4
  • 64
    • 0029644596 scopus 로고
    • Method to correlate tandem mass of modified peptides to amino acid sequences in the protein database
    • 1:CAS:528:DyaK2MXksVymt7g%3D
    • Yates III, J.R., Eng, J.K., McCormack, A.L., Schieltz, D.: Method to correlate tandem mass of modified peptides to amino acid sequences in the protein database. Anal. Chem. 67, 1426-1436 (1995)
    • (1995) Anal. Chem. , vol.67 , pp. 1426-1436
    • Yates, J.R.1    Eng, J.K.2    McCormack, A.L.3    Schieltz, D.4
  • 66
    • 0027296959 scopus 로고
    • Rapid cDNA sequencing (expressed sequence tags) from a directionally cloned human infant brain cDNA library
    • 1:CAS:528:DyaK3sXlslGitrc%3D
    • Adams, M.D., Soares, M.B., Kerlavage, A.R., Fields, C., Venter, J.C.: Rapid cDNA sequencing (expressed sequence tags) from a directionally cloned human infant brain cDNA library. Nat. Genet. 4, 373-380 (1993)
    • (1993) Nat. Genet. , vol.4 , pp. 373-380
    • Adams, M.D.1    Soares, M.B.2    Kerlavage, A.R.3    Fields, C.4    Venter, J.C.5
  • 67
    • 0029096634 scopus 로고
    • Toward a cDNA map of the human genome
    • 1:CAS:528:DyaK2MXovVSlsL8%3D
    • Korenberg, J.R., Chen, X.N., Adams, M.D., Venter, J.C.: Toward a cDNA map of the human genome. Genomics 29, 364-370 (1995)
    • (1995) Genomics , vol.29 , pp. 364-370
    • Korenberg, J.R.1    Chen, X.N.2    Adams, M.D.3    Venter, J.C.4
  • 68
    • 0029645432 scopus 로고
    • Mining genomes: Correlating tandem mass spectra of modified and unmodified peptides to sequences in nucleotide databases
    • 1:CAS:528:DyaK2MXnsVKqt7Y%3D
    • Yates III, J.R., Eng, J.K., McCormack, A.L.: Mining genomes: correlating tandem mass spectra of modified and unmodified peptides to sequences in nucleotide databases. Anal. Chem. 67, 3202-3210 (1995)
    • (1995) Anal. Chem. , vol.67 , pp. 3202-3210
    • Yates, J.R.1    Eng, J.K.2    McCormack, A.L.3
  • 69
    • 0032076248 scopus 로고    scopus 로고
    • The hMre11/hRad50 protein complex and Nijmegen breakage syndrome: Linkage of DNA repair to the cellular DNA damage response
    • Carney, J.P., Maser, R.S., Olivares, H., Davis, E.M., Lebeau, M., Yates III, J.R., Hays, L., Morgan, W.F., Petrini, J.H.J.: The hMre11/hRad50 protein complex and Nijmegen breakage syndrome: Linkage of DNA repair to the cellular DNA damage response. Cell 93, 477-486 (1998)
    • (1998) Cell , vol.93 , pp. 477-486
    • Carney, J.P.1    Maser, R.S.2    Olivares, H.3    Davis, E.M.4    Lebeau, M.5    Yates, J.R.6    Hays, L.7    Morgan, W.F.8    Petrini, J.H.J.9
  • 71
    • 0942287072 scopus 로고    scopus 로고
    • Proteogenomic mapping as a complementary method to perform genome annotation
    • 1:CAS:528:DC%2BD2cXhtVamtbc%3D
    • Jaffe, J.D., Berg, H.C., Church, G.M.: Proteogenomic mapping as a complementary method to perform genome annotation. Proteomics 4, 59-77 (2004)
    • (2004) Proteomics , vol.4 , pp. 59-77
    • Jaffe, J.D.1    Berg, H.C.2    Church, G.M.3
  • 72
    • 32544431583 scopus 로고    scopus 로고
    • Proteogenomic approaches for the molecular characterization of natural microbial communities
    • 1:CAS:528:DC%2BD28XkvFOksw%3D%3D
    • Banfield, J.F., Verberkmoes, N.C., Hettich, R.L., Thelen, M.P.: Proteogenomic approaches for the molecular characterization of natural microbial communities. OMICS 9, 301-333 (2005)
    • (2005) OMICS , vol.9 , pp. 301-333
    • Banfield, J.F.1    Verberkmoes, N.C.2    Hettich, R.L.3    Thelen, M.P.4
  • 73
    • 0026811273 scopus 로고
    • Peptide sequencing by matrix-assisted laser-desorption mass spectrometry
    • 1:CAS:528:DyaK38XhvFSntLw%3D
    • Spengler, B., Kirsch, D., Kaufmann, R., Jaeger, E.: Peptide sequencing by matrix-assisted laser-desorption mass spectrometry. Rapid. Commun. Mass Spectrom 6, 105-108 (1992)
    • (1992) Rapid. Commun. Mass Spectrom , vol.6 , pp. 105-108
    • Spengler, B.1    Kirsch, D.2    Kaufmann, R.3    Jaeger, E.4
  • 75
    • 0030298218 scopus 로고    scopus 로고
    • Search of sequence databases with uninterpreted high-energy collision-induced dissociation spectra of peptides
    • 1:CAS:528:DyaK28XmsF2ltL8%3D
    • Yates, J.R., Eng, J.K., Clauser, K.R., Burlingame, A.L.: Search of sequence databases with uninterpreted high-energy collision-induced dissociation spectra of peptides. J. Am. Soc. Mass Spectrom 7, 1089-1098 (1996)
    • (1996) J. Am. Soc. Mass Spectrom , vol.7 , pp. 1089-1098
    • Yates, J.R.1    Eng, J.K.2    Clauser, K.R.3    Burlingame, A.L.4
  • 76
    • 0023449998 scopus 로고
    • Novel fragmentation process of peptides by collision-induced decomposition in a tandem mass spectrometer: Differentiation of leucine and isoleucine
    • 1:CAS:528:DyaL2sXmtlOhtbw%3D
    • Johnson, R.S., Martin, S.A., Biemann, K., Stults, J.T., Watson, J.T.: Novel fragmentation process of peptides by collision-induced decomposition in a tandem mass spectrometer: differentiation of leucine and isoleucine. Anal. Chem. 59, 2621-2625 (1987)
    • (1987) Anal. Chem. , vol.59 , pp. 2621-2625
    • Johnson, R.S.1    Martin, S.A.2    Biemann, K.3    Stults, J.T.4    Watson, J.T.5
  • 77
    • 0030751012 scopus 로고    scopus 로고
    • Identifying the major components of Haemophilus iinfluenzae type-strain NCTC 8143
    • 1:CAS:528:DyaK2sXlvVCht7Y%3D
    • Link, A.J., Hays, L.G., Carmack, E.B., Yates III, J.R.: Identifying the major components of Haemophilus iinfluenzae type-strain NCTC 8143. Electrophoresis 18, 1314-1334 (1997)
    • (1997) Electrophoresis , vol.18 , pp. 1314-1334
    • Link, A.J.1    Hays, L.G.2    Carmack, E.B.3    Yates, J.R.4
  • 78
    • 0036393898 scopus 로고    scopus 로고
    • DTASelect and Contrast: Tools for assembling and comparing protein identifications from shotgun proteomics
    • 1:CAS:528:DC%2BD38XhsFektro%3D
    • Tabb, D.L., McDonald, W.H., Yates III, J.R.: DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics. J. Proteome. Res. 1, 21-26 (2002)
    • (2002) J. Proteome. Res. , vol.1 , pp. 21-26
    • Tabb, D.L.1    McDonald, W.H.2    Yates, J.R.3
  • 79
    • 0036589948 scopus 로고    scopus 로고
    • Code developments to improve the efficiency of automated MS/MS spectra interpretation
    • 1:CAS:528:DC%2BD38Xhs1aisbw%3D
    • Sadygov, R.G., Eng, J., Durr, E., Saraf, A., McDonald, H., MacCoss, M.J., Yates III, J.R.: Code developments to improve the efficiency of automated MS/MS spectra interpretation. J. Proteome. Res. 1, 211-215 (2002)
    • (2002) J. Proteome. Res. , vol.1 , pp. 211-215
    • Sadygov, R.G.1    Eng, J.2    Durr, E.3    Saraf, A.4    McDonald, H.5    MacCoss, M.J.6    Yates, J.R.7
  • 80
    • 0042338362 scopus 로고    scopus 로고
    • A statistical model for identifying proteins by tandem mass spectrometry
    • 1:CAS:528:DC%2BD3sXltlynt70%3D
    • Nesvizhskii, A.I., Keller, A., Kolker, E., Aebersold, R.: A statistical model for identifying proteins by tandem mass spectrometry. Anal. Chem. 75, 4646-4658 (2003)
    • (2003) Anal. Chem. , vol.75 , pp. 4646-4658
    • Nesvizhskii, A.I.1    Keller, A.2    Kolker, E.3    Aebersold, R.4
  • 81
    • 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
    • 1:CAS:528:DC%2BD38XnvVOitro%3D
    • 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. 2, 43-50 (2003)
    • (2003) J. Proteome. Res. , vol.2 , pp. 43-50
    • Peng, J.1    Elias, J.E.2    Thoreen, C.C.3    Licklider, L.J.4    Gygi, S.P.5
  • 82
    • 35748972060 scopus 로고    scopus 로고
    • Semi-supervised learning for peptide identification from shotgun proteomics datasets
    • Kall, L., Canterbury, J.D., Weston, J., Noble, W.S., MacCoss, M.J.: Semi-supervised learning for peptide identification from shotgun proteomics datasets. Nat. Methods 4, 923-925 (2007)
    • (2007) Nat. Methods , vol.4 , pp. 923-925
    • Kall, L.1    Canterbury, J.D.2    Weston, J.3    Noble, W.S.4    MacCoss, M.J.5
  • 83
    • 30844434187 scopus 로고    scopus 로고
    • A strategy for the identification of proteins localized to subcellular spaces: Application to E. coli periplasmic proteins
    • 1:CAS:528:DyaK2sXitFCqur0%3D
    • Link, A.J., Carmack, E., Yates III, J.R.: A strategy for the identification of proteins localized to subcellular spaces: application to E. coli periplasmic proteins. Int. J. Mass Spectrom Ion Process 160, 303-316 (1997)
    • (1997) Int. J. Mass Spectrom Ion Process , vol.160 , pp. 303-316
    • Link, A.J.1    Carmack, E.2    Yates, J.R.3
  • 85
    • 0031568420 scopus 로고    scopus 로고
    • Direct analysis and identification of proteins in mixtures by LC/MS/MS and database searching at the low-femtomole level
    • 1:CAS:528:DyaK2sXhtVCqtLs%3D
    • McCormack, A.L., Schieltz, D.M., Goode, B., Yang, S., Barnes, G., Drubin, D., Yates III, J.R.: Direct analysis and identification of proteins in mixtures by LC/MS/MS and database searching at the low-femtomole level. Anal. Chem. 69, 767-776 (1997)
    • (1997) Anal. Chem. , vol.69 , pp. 767-776
    • McCormack, A.L.1    Schieltz, D.M.2    Goode, B.3    Yang, S.4    Barnes, G.5    Drubin, D.6    Yates, J.R.7
  • 89
    • 74549125753 scopus 로고    scopus 로고
    • An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data
    • Ramskold, D., Wang, E.T., Burge, C.B., Sandberg, R.: An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS. Comput. Biol. 5, e1000598 (2009)
    • (2009) PLoS. Comput. Biol. , vol.5
    • Ramskold, D.1    Wang, E.T.2    Burge, C.B.3    Sandberg, R.4
  • 90
    • 0038561131 scopus 로고    scopus 로고
    • A method for the comprehensive proteomic analysis of membrane proteins
    • 1:CAS:528:DC%2BD3sXjt1Onsb4%3D
    • Wu, C.C., MacCoss, M.J., Howell, K.E., Yates III, J.R.: A method for the comprehensive proteomic analysis of membrane proteins. Nat. Biotechnol. 21, 532-538 (2003)
    • (2003) Nat. Biotechnol. , vol.21 , pp. 532-538
    • Wu, C.C.1    MacCoss, M.J.2    Howell, K.E.3    Yates, J.R.4
  • 92
    • 0035106351 scopus 로고    scopus 로고
    • Large-scale analysis of the yeast proteome by multidimensional protein identification technology
    • 1:CAS:528:DC%2BD3MXhslaqtbw%3D
    • Washburn, M.P., Wolters, D., Yates III, J.R.: Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 19, 242-247 (2001)
    • (2001) Nat. Biotechnol. , vol.19 , pp. 242-247
    • Washburn, M.P.1    Wolters, D.2    Yates, J.R.3
  • 93
    • 84876148755 scopus 로고    scopus 로고
    • Protein analysis by shotgun/bottom-up proteomics
    • 1:CAS:528:DC%2BC3sXjtVClu7g%3D
    • Zhang, Y.Y., Fonslow, B.R., Shan, B., Baek, M.C., Yates, J.R.: Protein analysis by shotgun/bottom-up proteomics. Chem. Rev. 113, 2343-2394 (2013)
    • (2013) Chem. Rev. , vol.113 , pp. 2343-2394
    • Zhang, Y.Y.1    Fonslow, B.R.2    Shan, B.3    Baek, M.C.4    Yates, J.R.5
  • 94
    • 84874630267 scopus 로고    scopus 로고
    • Segmentation of precursor mass range using "tiling" approach increases peptide identifications for MS1-based label-free quantification
    • 1:CAS:528:DC%2BC3sXhsVensbo%3D
    • Vincent, C.E., Potts, G.K., Ulbrich, A., Westphall, M.S., Atwood III, J.A., Coon, J.J., Weatherly, D.B.: Segmentation of precursor mass range using "tiling" approach increases peptide identifications for MS1-based label-free quantification. Anal. Chem. 85, 2825-2832 (2013)
    • (2013) Anal. Chem. , vol.85 , pp. 2825-2832
    • Vincent, C.E.1    Potts, G.K.2    Ulbrich, A.3    Westphall, M.S.4    Atwood, J.A.5    Coon, J.J.6    Weatherly, D.B.7


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