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Volumn 5, Issue 4, 2006, Pages 652-670

Dynamic spectrum quality assessment and iterative computational analysis of shotgun proteomic data: Toward more efficient identification of post-translational modifications, sequence polymorphisms, and novel peptides

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARABIDOPSIS; ARTICLE; CHEMICAL MODIFICATION; CONTROLLED STUDY; GENE SEQUENCE; HAEMOPHILUS INFLUENZAE; HUMAN; HUMAN CELL; INFORMATION PROCESSING; LIPID RAFT; NONHUMAN; PRIORITY JOURNAL; PROCESS DEVELOPMENT; PROCESS OPTIMIZATION; PROTEIN ANALYSIS; PROTEIN PROCESSING; PROTEOMICS; QUALITY CONTROL; SEQUENCE DATABASE; SINGLE NUCLEOTIDE POLYMORPHISM; TANDEM MASS SPECTROMETRY;

EID: 33645708138     PISSN: 15359476     EISSN: None     Source Type: Journal    
DOI: 10.1074/mcp.M500319-MCP200     Document Type: Article
Times cited : (162)

References (70)
  • 1
    • 0037435030 scopus 로고    scopus 로고
    • Mass spectrometry-based proteomics
    • Aebersold, R., and Mann, M. (2003) Mass spectrometry-based proteomics. Nature 422, 198-207
    • (2003) Nature , vol.422 , pp. 198-207
    • Aebersold, R.1    Mann, M.2
  • 5
    • 1042266254 scopus 로고    scopus 로고
    • Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS
    • Nesvizhskii, A. I., and Aebersold, R. (2004) Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS. Drug Discov. Today 9, 173-181
    • (2004) Drug Discov. Today , vol.9 , pp. 173-181
    • Nesvizhskii, A.I.1    Aebersold, R.2
  • 6
    • 0037338297 scopus 로고    scopus 로고
    • Data analysis - The Achilles heel of proteomics
    • Patterson, S. D. (2003) Data analysis - the Achilles heel of proteomics. Nat. Biotechnol. 21, 221-222
    • (2003) Nat. Biotechnol. , vol.21 , pp. 221-222
    • Patterson, S.D.1
  • 7
    • 13844271209 scopus 로고    scopus 로고
    • Informatics for protein identification by mass spectrometry
    • Johnson, R. S., Davis, M. T., Taylor, J. A., and Patterson, S. D. (2005) Informatics for protein identification by mass spectrometry. Methods 35, 223-236
    • (2005) Methods , vol.35 , pp. 223-236
    • Johnson, R.S.1    Davis, M.T.2    Taylor, J.A.3    Patterson, S.D.4
  • 9
    • 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., and Yates, J. R. (1994) An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 5, 976-989
    • (1994) J. Am. Soc. Mass Spectrom. , vol.5 , pp. 976-989
    • Eng, J.K.1    McCormack, A.L.2    Yates, J.R.3
  • 10
    • 0028575316 scopus 로고
    • Error-tolerant identification of peptides in sequence databases by peptide sequence tags
    • Mann, M., and Wilm, M. (1994) Error-tolerant identification of peptides in sequence databases by peptide sequence tags. Anal. Chem. 66, 4390-4399
    • (1994) Anal. Chem. , vol.66 , pp. 4390-4399
    • Mann, M.1    Wilm, M.2
  • 11
    • 0033434080 scopus 로고    scopus 로고
    • Probability-based protein identification by searching sequence databases using mass spectrometry data
    • Perkins, D. N., Pappin, D. J. C., Creasy, D. M., and Cottrell, J. C. (1999) Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 20, 3551-3567
    • (1999) Electrophoresis , vol.20 , pp. 3551-3567
    • Perkins, D.N.1    Pappin, D.J.C.2    Creasy, D.M.3    Cottrell, J.C.4
  • 12
    • 0033565832 scopus 로고    scopus 로고
    • Role of accurate mass measurement (±10 ppm) in protein identification strategies employing MS or MS/MS and database searching
    • Clauser, K. R., Baker, P., and Burlingame, A. L. (1999) Role of accurate mass measurement (±10 ppm) in protein identification strategies employing MS or MS/MS and database searching. Anal. Chem. 71, 2871-2882
    • (1999) Anal. Chem. , vol.71 , pp. 2871-2882
    • Clauser, K.R.1    Baker, P.2    Burlingame, A.L.3
  • 13
    • 0036211823 scopus 로고    scopus 로고
    • RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimizes protein identification, and archives data in a relational database
    • Field, H. I., Fenyo, D., and Beavis, R. C. (2002) RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimizes protein identification, and archives data in a relational database. Proteomics 2, 36-47
    • (2002) Proteomics , vol.2 , pp. 36-47
    • Field, H.I.1    Fenyo, D.2    Beavis, R.C.3
  • 14
    • 0036808207 scopus 로고    scopus 로고
    • ProbID: A probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data
    • Zhang, N., Aebersold, R., and Schwikowski, B. (2002) ProbID: a probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data. Proteomics 2, 1406-1412
    • (2002) Proteomics , vol.2 , pp. 1406-1412
    • Zhang, N.1    Aebersold, R.2    Schwikowski, B.3
  • 15
    • 3142702204 scopus 로고    scopus 로고
    • TANDEM: Matching proteins with tandem mass spectra
    • Craig, R., and Beavis, R. C. (2004) TANDEM: matching proteins with tandem mass spectra. Bioinformatics 20, 1466-1470
    • (2004) Bioinformatics , vol.20 , pp. 1466-1470
    • Craig, R.1    Beavis, R.C.2
  • 17
    • 0041358793 scopus 로고    scopus 로고
    • OLAV: Towards high-throughput tandem mass spectrometry data identification
    • Colinge, J., Masselot, A., Giron, M., Dessingy, T., and Magnin, J. (2003) OLAV: towards high-throughput tandem mass spectrometry data identification. Proteomics 3, 1454-1463
    • (2003) Proteomics , vol.3 , pp. 1454-1463
    • Colinge, J.1    Masselot, A.2    Giron, M.3    Dessingy, T.4    Magnin, J.5
  • 18
    • 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., and Aebersold, R. (2002) Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 74, 5383-5392
    • (2002) Anal. Chem. , vol.74 , pp. 5383-5392
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 19
    • 0042338362 scopus 로고    scopus 로고
    • A statistical model for identifying proteins by tandem mass spectrometry
    • Nesvizhskii, A. I., Keller, A., Kolker, E., and Aebersold, R. (2003) A statistical model for identifying proteins by tandem mass spectrometry. Anal. Chem. 75, 4646-4658
    • (2003) Anal. Chem. , vol.75 , pp. 4646-4658
    • Nesvizhskii, A.I.1    Keller, A.2    Kolker, E.3    Aebersold, R.4
  • 20
    • 2542640024 scopus 로고    scopus 로고
    • Protein identification by mass spectrometry: Issues to be considered
    • Baldwin, M. A. (2004) Protein identification by mass spectrometry: issues to be considered. Mol. Cell. Proteomics 3, 1-9
    • (2004) Mol. Cell. Proteomics , vol.3 , pp. 1-9
    • Baldwin, M.A.1
  • 23
    • 24044487850 scopus 로고    scopus 로고
    • Comprehensive analysis of a multidimensional liquid chromatography mass spectrometry dataset acquired on a quadrupole selecting, quadrupole collision cell, time-of-flight mass spectrometer: I. How much of the data is theoretically interpretable by search engines?
    • Chalkley, R. J., Baker, P. R., Hansen, K. C., Medzihradszky, K. F., Allen, N. P., Rexach, M., and Burlingame, A. L. (2005) Comprehensive analysis of a multidimensional liquid chromatography mass spectrometry dataset acquired on a quadrupole selecting, quadrupole collision cell, time-of-flight mass spectrometer: I. How much of the data is theoretically interpretable by search engines? Mol. Cell. Proteomics 4, 1189-1193
    • (2005) Mol. Cell. Proteomics , vol.4 , pp. 1189-1193
    • Chalkley, R.J.1    Baker, P.R.2    Hansen, K.C.3    Medzihradszky, K.F.4    Allen, N.P.5    Rexach, M.6    Burlingame, A.L.7
  • 25
    • 0034484286 scopus 로고    scopus 로고
    • Method for screening peptide fragment ion mass spectra prior to database searching
    • Moore, R. E., Young, M. K., and Lee, T. D. (2000) Method for screening peptide fragment ion mass spectra prior to database searching. J. Am. Soc. Mass Spectrom. 11, 422-426
    • (2000) J. Am. Soc. Mass Spectrom. , vol.11 , pp. 422-426
    • Moore, R.E.1    Young, M.K.2    Lee, T.D.3
  • 26
    • 14644406185 scopus 로고    scopus 로고
    • Sequence tag scanning: A new explorative strategy for recognition of unexpected protein alterations by nanoelectrospray ionization-tandem mass spectrometry
    • Salek, M., Bartolo, V. D., Cittaro, D., Borsotti, D., Wei, J., Acuto, O., Rappsilber, J., and Lehmann, W. D. (2005) Sequence tag scanning: a new explorative strategy for recognition of unexpected protein alterations by nanoelectrospray ionization-tandem mass spectrometry. Proteomics 5, 667-674
    • (2005) Proteomics , vol.5 , pp. 667-674
    • Salek, M.1    Bartolo, V.D.2    Cittaro, D.3    Borsotti, D.4    Wei, J.5    Acuto, O.6    Rappsilber, J.7    Lehmann, W.D.8
  • 27
    • 24744455665 scopus 로고    scopus 로고
    • Automatic quality assessment of peptide tandem mass spectra
    • Bern, M., Goldberg, D., McDonald, W. H., and Yates, J. R., III (2004) Automatic quality assessment of peptide tandem mass spectra. Bioinformatics, 20, Suppl. 1, 149-154
    • (2004) Bioinformatics , vol.20 , Issue.SUPPL. 1 , pp. 149-154
    • Bern, M.1    Goldberg, D.2    McDonald, W.H.3    Yates III, J.R.4
  • 28
    • 7044263254 scopus 로고    scopus 로고
    • Spectral quality assessment for high-throughput tandem mass spectrometry proteomics
    • Purvine, S., Kolker, N., and Kolker, E. (2004) Spectral quality assessment for high-throughput tandem mass spectrometry proteomics. OMICS 8, 255-265
    • (2004) OMICS , vol.8 , pp. 255-265
    • Purvine, S.1    Kolker, N.2    Kolker, E.3
  • 29
    • 17444423714 scopus 로고    scopus 로고
    • Assessing data quality of peptide mass spectra obtained by quadrupole ion trap mass spectrometry
    • Xu, M., Geer, L. Y., Bryant, S. H., Roth, J. S., Kowalak, J. A., Maynard, D. M., and Markey, S. P. (2005) Assessing data quality of peptide mass spectra obtained by quadrupole ion trap mass spectrometry. J. Proteome Res. 4, 300-305
    • (2005) J. Proteome Res. , vol.4 , pp. 300-305
    • Xu, M.1    Geer, L.Y.2    Bryant, S.H.3    Roth, J.S.4    Kowalak, J.A.5    Maynard, D.M.6    Markey, S.P.7
  • 30
    • 33746408762 scopus 로고    scopus 로고
    • The application of new software tools to quantitative protein profiling via ICAT and tandem mass spectrometry: II. Evaluation of tandem mass spectrometry methodologies for large-scale protein analysis and the application of statistical tools for data analysis and interpretation
    • Von Haller, P. D., Yi, E., Donohoe, S., Vaughn, K., Keller, A., Nesvizhskii, A. I., Eng, J., Li, X. J., Goodlett, D. R., Aebersold, R., and Watts, J. D. (2003) The application of new software tools to quantitative protein profiling via ICAT and tandem mass spectrometry: II. Evaluation of tandem mass spectrometry methodologies for large-scale protein analysis and the application of statistical tools for data analysis and interpretation. Mol. Cell. Proteomics 2, 428-442
    • (2003) Mol. Cell. Proteomics , vol.2 , pp. 428-442
    • Von Haller, P.D.1    Yi, E.2    Donohoe, S.3    Vaughn, K.4    Keller, A.5    Nesvizhskii, A.I.6    Eng, J.7    Li, X.J.8    Goodlett, D.R.9    Aebersold, R.10    Watts, J.D.11
  • 32
  • 35
    • 0037353846 scopus 로고    scopus 로고
    • Statistical characterization of ion trap tandem mass spectra from doubly charged tryptic peptides
    • Tabb, D. L., Smith, L. L., Breci, L. A., Wysocki, V. H., Lin, D., and Yates, J. R. (2003) Statistical characterization of ion trap tandem mass spectra from doubly charged tryptic peptides. Anal. Chem. 75, 1155-1163
    • (2003) Anal. Chem. , vol.75 , pp. 1155-1163
    • Tabb, D.L.1    Smith, L.L.2    Breci, L.A.3    Wysocki, V.H.4    Lin, D.5    Yates, J.R.6
  • 36
    • 0001144659 scopus 로고    scopus 로고
    • Mass spectral classifiers for supporting systematic structure elucidation
    • Varmuza, K., and Werther, W. (1996) Mass spectral classifiers for supporting systematic structure elucidation. J. Chem. Inf. Comput. Sci. 36, 323-333
    • (1996) J. Chem. Inf. Comput. Sci. , vol.36 , pp. 323-333
    • Varmuza, K.1    Werther, W.2
  • 37
    • 0038797944 scopus 로고    scopus 로고
    • 2nd Ed., John Wiley & Sons Ltd., Chichester, UK
    • Webb, A. (2002) Statistical Pattern Recognition, 2nd Ed., John Wiley & Sons Ltd., Chichester, UK
    • (2002) Statistical Pattern Recognition
    • Webb, A.1
  • 38
    • 0041859530 scopus 로고    scopus 로고
    • Preprocessing of tandem mass spectrometric data to support automatic protein identification
    • Gentzel, M., Kocher, T., Ponnusamy, S., and Wilm, M. (2003) Preprocessing of tandem mass spectrometric data to support automatic protein identification. Proteomics 3, 1597-1610
    • (2003) Proteomics , vol.3 , pp. 1597-1610
    • Gentzel, M.1    Kocher, T.2    Ponnusamy, S.3    Wilm, M.4
  • 39
    • 6044266168 scopus 로고    scopus 로고
    • Increased identification of peptides by enhanced data processing of high-resolution MALDI TOF/TOF mass spectra prior to database searching
    • Rejtar, T., Chen, H. S., Andreev, V., Moskovets, E., and Karger, B. L. (2004) Increased identification of peptides by enhanced data processing of high-resolution MALDI TOF/TOF mass spectra prior to database searching. Anal. Chem. 76, 6017-6028
    • (2004) Anal. Chem. , vol.76 , pp. 6017-6028
    • Rejtar, T.1    Chen, H.S.2    Andreev, V.3    Moskovets, E.4    Karger, B.L.5
  • 40
    • 27644555055 scopus 로고    scopus 로고
    • Interpretation of shotgun proteomic data: The protein inference problem
    • Nesvizhskii, A. I., and Aebersold, R. (2005) Interpretation of shotgun proteomic data: the protein inference problem. Mol. Cell. Proteomics 4, 1419-1440
    • (2005) Mol. Cell. Proteomics , vol.4 , pp. 1419-1440
    • Nesvizhskii, A.I.1    Aebersold, R.2
  • 41
    • 0037462954 scopus 로고    scopus 로고
    • N-terminal acetyltransferases and sequence requirements for N-terminal acetylation of eukaryotic proteins
    • Polevoda, B., and Sherman, F. (2003) N-terminal acetyltransferases and sequence requirements for N-terminal acetylation of eukaryotic proteins. J. Mol. Biol. 325, 595-622
    • (2003) J. Mol. Biol. , vol.325 , pp. 595-622
    • Polevoda, B.1    Sherman, F.2
  • 42
    • 0038333588 scopus 로고    scopus 로고
    • Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides
    • Gevaert, K., Goethais, M., Martens, L., Van Damme, J., Staes, A., Thomas, G. R., and Vandekerckhove, J. (2003) Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides. Nat. Biotechnol. 21, 566-569
    • (2003) Nat. Biotechnol. , vol.21 , pp. 566-569
    • Gevaert, K.1    Goethais, M.2    Martens, L.3    Van Damme, J.4    Staes, A.5    Thomas, G.R.6    Vandekerckhove, J.7
  • 43
    • 0035150398 scopus 로고    scopus 로고
    • Use of mass spectrometry-derived data to annotate nucleotide and protein sequence databases
    • Mann, M., and Pandey, A. (2001) Use of mass spectrometry-derived data to annotate nucleotide and protein sequence databases. Trends Biochem. Sci. 26, 54-60
    • (2001) Trends Biochem. Sci. , vol.26 , pp. 54-60
    • Mann, M.1    Pandey, A.2
  • 44
    • 35048904499 scopus 로고    scopus 로고
    • Sequence database compression for peptide identification from tandem mass spectra
    • Bergen, Norway (September 14-17, 2004)
    • Edward, N., and Lippert, R. (2004) Sequence database compression for peptide identification from tandem mass spectra, in Proceedings of the 4th Workshop on Algorithms in Bioinformatics (WABI 2004), Bergen, Norway (September 14-17, 2004), p. 230-241
    • (2004) Proceedings of the 4th Workshop on Algorithms in Bioinformatics (WABI 2004) , pp. 230-241
    • Edward, N.1    Lippert, R.2
  • 46
    • 84855631913 scopus 로고    scopus 로고
    • The single nucleotide polymorphism database (dbSNP) of nucleotide sequence variation
    • National Center for Biotechnology Information, Bethesda, MD
    • Kitts, A., and Sherry, S. (2003) The single nucleotide polymorphism database (dbSNP) of nucleotide sequence variation, in The NCBI Handbook, pp. 5.1-5.30, National Center for Biotechnology Information, Bethesda, MD
    • (2003) The NCBI Handbook
    • Kitts, A.1    Sherry, S.2
  • 48
    • 0345138999 scopus 로고    scopus 로고
    • LIME, a novel transmembrane adaptor protein, associates with p56Ick and mediates T cell activation
    • Hur, E. M., Son, M., Lee, O. H., Choi, Y. B., Park, C., Lee, H., and Yun, Y. (2003) LIME, a novel transmembrane adaptor protein, associates with p56Ick and mediates T cell activation. J. Exp. Med. 198, 1463-1473
    • (2003) J. Exp. Med. , vol.198 , pp. 1463-1473
    • Hur, E.M.1    Son, M.2    Lee, O.H.3    Choi, Y.B.4    Park, C.5    Lee, H.6    Yun, Y.7
  • 49
    • 0035350894 scopus 로고    scopus 로고
    • Mass spectrometry allows direct identification of proteins in large genomes
    • Kuster, B., Mortensen, P., Andersen, J. S., and Mann, M. (2001) Mass spectrometry allows direct identification of proteins in large genomes. Proteomics 1, 641-650
    • (2001) Proteomics , vol.1 , pp. 641-650
    • Kuster, B.1    Mortensen, P.2    Andersen, J.S.3    Mann, M.4
  • 50
    • 0035346719 scopus 로고    scopus 로고
    • Interrogating the human genome using uninterpreted mass spectrometry data
    • Choudhary, J. S., Blackstock, W. P., Creasy, D. M., and Cottrell, J. S. (2001) Interrogating the human genome using uninterpreted mass spectrometry data. Proteomics 1, 651-667
    • (2001) Proteomics , vol.1 , pp. 651-667
    • Choudhary, J.S.1    Blackstock, W.P.2    Creasy, D.M.3    Cottrell, J.S.4
  • 52
    • 0842288891 scopus 로고    scopus 로고
    • Factors that affect ion trap data-dependent MS/MS in proteomics
    • Wenner, B. R., and Lynn, B. C. (2004) Factors that affect ion trap data-dependent MS/MS in proteomics. J. Am. Soc. Mass Spectrom. 15, 150-157
    • (2004) J. Am. Soc. Mass Spectrom. , vol.15 , pp. 150-157
    • Wenner, B.R.1    Lynn, B.C.2
  • 53
    • 24044508863 scopus 로고    scopus 로고
    • New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniques
    • Savitski, M. M., Nielsen, M. L., and Zubarev, R. A. (2005) New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniques. Mol. Cell. Proteomics 4, 1180-1188
    • (2005) Mol. Cell. Proteomics , vol.4 , pp. 1180-1188
    • Savitski, M.M.1    Nielsen, M.L.2    Zubarev, R.A.3
  • 54
    • 1842580753 scopus 로고    scopus 로고
    • Improving large-scale proteomics by clustering of mass spectrometry data
    • Beer, I., Barnes, E., Ziv, T., and Admon, A. (2004) Improving large-scale proteomics by clustering of mass spectrometry data. Proteomics 4, 950-960
    • (2004) Proteomics , vol.4 , pp. 950-960
    • Beer, I.1    Barnes, E.2    Ziv, T.3    Admon, A.4
  • 57
    • 0002818648 scopus 로고    scopus 로고
    • Combining approaches to information retrieval
    • (Croft, W. B., ed) Kluwer Academic Publishers, Dordrecht, Netherlands
    • Croft, W. B. (2000) Combining approaches to information retrieval, in Advances in Information Retrieval (Croft, W. B., ed) pp. 1-36, Kluwer Academic Publishers, Dordrecht, Netherlands
    • (2000) Advances in Information Retrieval , pp. 1-36
    • Croft, W.B.1
  • 58
    • 23944451618 scopus 로고    scopus 로고
    • An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: Sensitivity and specificity analysis
    • Kapp, E. A., Schutz, F., Connolly, L. M., Chakel, J. A., Meza, J. E., Miller, C. A., Fenyo, D., Eng, J. K., Adkins, J. N., Omenn, G. S., and Simpson, R. J. (2005) An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: sensitivity and specificity analysis. Proteomics 5, 3475-3490
    • (2005) Proteomics , vol.5 , pp. 3475-3490
    • Kapp, E.A.1    Schutz, F.2    Connolly, L.M.3    Chakel, J.A.4    Meza, J.E.5    Miller, C.A.6    Fenyo, D.7    Eng, J.K.8    Adkins, J.N.9    Omenn, G.S.10    Simpson, R.J.11
  • 60
    • 0035356977 scopus 로고    scopus 로고
    • Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry
    • Taylor, J. A., and Johnson, R. S. (2001) Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry. Anal. Chem. 73, 2594-2604
    • (2001) Anal. Chem. , vol.73 , pp. 2594-2604
    • Taylor, J.A.1    Johnson, R.S.2
  • 61
    • 0034814613 scopus 로고    scopus 로고
    • A dynamic programming approach to de novo sequencing via tandem mass spectrometry
    • Chen, T., Kao, M. Y., Tepel, M., Rush, J., and Church, G. M. (2001) A dynamic programming approach to de novo sequencing via tandem mass spectrometry. J. Comput. Biol. 8, 325-337
    • (2001) J. Comput. Biol. , vol.8 , pp. 325-337
    • Chen, T.1    Kao, M.Y.2    Tepel, M.3    Rush, J.4    Church, G.M.5
  • 64
    • 0141884306 scopus 로고    scopus 로고
    • Peptide and protein de novo sequencing by mass spectrometry
    • Standing, K. G. (2003) Peptide and protein de novo sequencing by mass spectrometry. Curr. Opin. Struct. Biol. 13, 595-601
    • (2003) Curr. Opin. Struct. Biol. , vol.13 , pp. 595-601
    • Standing, K.G.1
  • 65
    • 0345600791 scopus 로고    scopus 로고
    • GutenTag: High-throughput sequence tagging via an empirically derived fragmentation model
    • Tabb, D. L., Saraf, A., and Yates, J. R. (2003) GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model. Anal. Chem. 75, 6415-6421
    • (2003) Anal. Chem. , vol.75 , pp. 6415-6421
    • Tabb, D.L.1    Saraf, A.2    Yates, J.R.3
  • 66
    • 23944455372 scopus 로고    scopus 로고
    • Peptide sequence tags for fast database search in mass-spectrometry
    • Frank, A., Tanner, S., Bafna, V., and Pevzner, P. (2005) Peptide sequence tags for fast database search in mass-spectrometry. J. Proteome Res. 4, 1287-1295
    • (2005) J. Proteome Res. , vol.4 , pp. 1287-1295
    • Frank, A.1    Tanner, S.2    Bafna, V.3    Pevzner, P.4
  • 67
    • 0038047148 scopus 로고    scopus 로고
    • Popitam: Towards new heuristic strategies to improve protein identification from tandem mass spectrometry data
    • Hernandez, P., Gras, R., Frey, J., and Appel, R. D. (2003) Popitam: towards new heuristic strategies to improve protein identification from tandem mass spectrometry data. Proteomics 3, 870-878
    • (2003) Proteomics , vol.3 , pp. 870-878
    • Hernandez, P.1    Gras, R.2    Frey, J.3    Appel, R.D.4
  • 68
    • 0037725335 scopus 로고    scopus 로고
    • Combining mass spectrometry with database interrogation strategies in proteomics
    • Liska, A. J., and Shevchenko, A. (2003) Combining mass spectrometry with database interrogation strategies in proteomics. Trends Anal. Chem. 22, 291-298
    • (2003) Trends Anal. Chem. , vol.22 , pp. 291-298
    • Liska, A.J.1    Shevchenko, A.2
  • 69
    • 1942423061 scopus 로고    scopus 로고
    • High-throughput identification of proteins and unanticipated sequence modifications using a mass-based alignment algorithm for MS/MS de novo sequencing results
    • Searle, B. C., Dasari, S., Turner, M., Reddy, A. P., Choi, D., Wilmarth, P. A., McCormack, A. L., David, L. L., and Nagalla, S. R. (2004) High-throughput identification of proteins and unanticipated sequence modifications using a mass-based alignment algorithm for MS/MS de novo sequencing results. Anal. Chem. 76, 2220-2230
    • (2004) Anal. Chem. , vol.76 , pp. 2220-2230
    • Searle, B.C.1    Dasari, S.2    Turner, M.3    Reddy, A.P.4    Choi, D.5    Wilmarth, P.A.6    McCormack, A.L.7    David, L.L.8    Nagalla, S.R.9
  • 70
    • 17444383114 scopus 로고    scopus 로고
    • P-Mod: An algorithm and software to map modifications to peptide sequences using tandem MS data
    • Hansen, B. T., Davey, S. W., Ham, A. J., and Liebler, D. C. (2005) P-Mod: an algorithm and software to map modifications to peptide sequences using tandem MS data. J. Proteome Res. 4, 358-368
    • (2005) J. Proteome Res. , vol.4 , pp. 358-368
    • Hansen, B.T.1    Davey, S.W.2    Ham, A.J.3    Liebler, D.C.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.