메뉴 건너뛰기




Volumn 3, Issue 2 SUPPL.1, 2004, Pages 43-49

Analysis of large-scale MS data sets: The dramas and the delights

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MARKER; PEPTIDE; PHOSPHATASE; PHOSPHOTRANSFERASE; PROTEIN; PROTEOME;

EID: 15744382914     PISSN: 17418372     EISSN: None     Source Type: Journal    
DOI: 10.1016/s1741-8372(04)02412-0     Document Type: Review
Times cited : (5)

References (38)
  • 1
    • 0037338297 scopus 로고    scopus 로고
    • Data analysis - The Achilles heel of proteomics
    • Patterson, S.D. (2003) Data analysis - the Achilles heel of proteomics. Net. Biotechnol. 21, 221-222
    • (2003) Net. Biotechnol. , vol.21 , pp. 221-222
    • Patterson, S.D.1
  • 2
    • 0037015610 scopus 로고    scopus 로고
    • Analysis of the Plasmodium falciparum proteome by high-accuracy mass spectrometry
    • Lasonder, E. et al. (2002) Analysis of the Plasmodium falciparum proteome by high-accuracy mass spectrometry. Nature 419, 537-542
    • (2002) Nature , vol.419 , pp. 537-542
    • Lasonder, E.1
  • 3
    • 0037015602 scopus 로고    scopus 로고
    • A proteomic view of the Plasmodium falciparum life cycle
    • Florens, L. et al. (2002) A proteomic view of the Plasmodium falciparum life cycle. Nature 419, 520-526
    • (2002) Nature , vol.419 , pp. 520-526
    • Florens, L.1
  • 4
    • 0035106351 scopus 로고    scopus 로고
    • Large scale analysis of the yeast proteome via multidimensional protein identification technology
    • Washburn, M.P. et al. (2001) Large scale analysis of the yeast proteome via multidimensional protein identification technology. Nat. Biotechnol. 19, 242-247
    • (2001) Nat. Biotechnol. , vol.19 , pp. 242-247
    • Washburn, M.P.1
  • 5
    • 0037143692 scopus 로고    scopus 로고
    • Global analysis of the Deinococcus radiodurans R1 proteome by using accurate mass tags
    • Lipton, M.S. et al. (2002) Global analysis of the Deinococcus radiodurans R1 proteome by using accurate mass tags. Proc. Natl. Acad. Sci. U.S.A. 99, 11049-11054
    • (2002) Proc. Natl. Acad. Sci. U.S.A. , vol.99 , pp. 11049-11054
    • Lipton, M.S.1
  • 6
    • 0031304362 scopus 로고    scopus 로고
    • Molecular imaging of biological samples: Localisation of peptides and proteins using MALDI-TOF-MS
    • Caprioli, R.M. et al. (1997) Molecular imaging of biological samples: localisation of peptides and proteins using MALDI-TOF-MS. Anal. Chem. 69, 4751-4760
    • (1997) Anal. Chem. , vol.69 , pp. 4751-4760
    • Caprioli, R.M.1
  • 7
    • 0041735992 scopus 로고    scopus 로고
    • Proteomic patterns of tumour subsets in non-small-cell lung cancer
    • Yanagisawa, K. et al. (2003) Proteomic patterns of tumour subsets in non-small-cell lung cancer. Lancet 362, 433-439
    • (2003) Lancet , vol.362 , pp. 433-439
    • Yanagisawa, K.1
  • 8
    • 12444330378 scopus 로고    scopus 로고
    • Processing of serum proteins underlies the mass spectral fingerprinting of myocardial infarction
    • Marshall, J. et al. (2003) Processing of serum proteins underlies the mass spectral fingerprinting of myocardial infarction. J. Proteome Res. 2, 361-372
    • (2003) J. Proteome Res. , vol.2 , pp. 361-372
    • Marshall, J.1
  • 9
    • 0037458636 scopus 로고    scopus 로고
    • Comprehensive proteomic analysis of breast cancer cell membranes reveals unique proteins with potential roles in clinical cancer
    • Adam, P.J. et al. (2003) Comprehensive proteomic analysis of breast cancer cell membranes reveals unique proteins with potential roles in clinical cancer. J. Biol. Chem. 278, 6482-6489
    • (2003) J. Biol. Chem. , vol.278 , pp. 6482-6489
    • Adam, P.J.1
  • 10
    • 0942276251 scopus 로고    scopus 로고
    • A detergent- and cyanogen bromide-free method for integral membrane proteomics: Application to Halobacterium purple membranes and human epidermis
    • in press
    • Blonder, J. et al. A detergent- and cyanogen bromide-free method for integral membrane proteomics: application to Halobacterium purple membranes and human epidermis. Proteomics (in press)
    • Proteomics
    • Blonder, J.1
  • 11
    • 2142721825 scopus 로고    scopus 로고
    • HysTag - A novel proteomic quantification tool applied to differential display analysis of membrane proteins from distinct areas of mouse brain
    • Olsen, J.V. et al. (2004) HysTag - a novel proteomic quantification tool applied to differential display analysis of membrane proteins from distinct areas of mouse brain. Md. Cell. Proteomics 3, 82-92
    • (2004) Md. Cell. Proteomics , vol.3 , pp. 82-92
    • Olsen, J.V.1
  • 12
    • 10744224439 scopus 로고    scopus 로고
    • Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria
    • Mootha, V.K. et al. (2003) Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 115, 629-640
    • (2003) Cell , vol.115 , pp. 629-640
    • Mootha, V.K.1
  • 13
    • 0037039159 scopus 로고    scopus 로고
    • Directed proteomic analysis of the human nucleolus
    • Andersen, J.S. et al. (2002) Directed proteomic analysis of the human nucleolus. Curr. Biol. 12, 1-11
    • (2002) Curr. Biol. , vol.12 , pp. 1-11
    • Andersen, J.S.1
  • 14
    • 0037044851 scopus 로고    scopus 로고
    • Proteomic analysis of a detergent-resistant membrane skeleton from neutrophil plasma membranes
    • Nebl, T. et al. (2002) Proteomic analysis of a detergent-resistant membrane skeleton from neutrophil plasma membranes. J. Biol. Chem. 277, 43399-43409
    • (2002) J. Biol. Chem. , vol.277 , pp. 43399-43409
    • Nebl, T.1
  • 15
    • 0037947831 scopus 로고    scopus 로고
    • Unbiased quantitative proteomics of lipid rafts reveals high specificity for signalling factors
    • Foster, L.J. et al. (2003) Unbiased quantitative proteomics of lipid rafts reveals high specificity for signalling factors. Proc. Natl. Acad. Sci. U.S.A. 100, 5813-5818
    • (2003) Proc. Natl. Acad. Sci. U.S.A. , vol.100 , pp. 5813-5818
    • Foster, L.J.1
  • 16
    • 0031711073 scopus 로고    scopus 로고
    • Mass spectrometry and EST-database searching allows characterisation of the multiprotein spliceosome complex
    • Neubauer, G. et al. (1998) Mass spectrometry and EST-database searching allows characterisation of the multiprotein spliceosome complex. Nat. Gent. 20, 46-50
    • (1998) Nat. Gent. , vol.20 , pp. 46-50
    • Neubauer, G.1
  • 17
    • 0037336905 scopus 로고    scopus 로고
    • Characterisation of the human heart mitochondrial proteome
    • Taylor, S.W. et al. (2003) Characterisation of the human heart mitochondrial proteome. Nat. Biotechnol. 21, 281-286
    • (2003) Nat. Biotechnol. , vol.21 , pp. 281-286
    • Taylor, S.W.1
  • 18
    • 0036198435 scopus 로고    scopus 로고
    • Phosphoproteome analysis by mass spectrometry and its application to Saccharamyces cerevisiae
    • Ficarro, S.B. et al. (2002) Phosphoproteome analysis by mass spectrometry and its application to Saccharamyces cerevisiae. Nat. Biotechnol. 20, 301-305
    • (2002) Nat. Biotechnol. , vol.20 , pp. 301-305
    • Ficarro, S.B.1
  • 19
    • 1242339573 scopus 로고    scopus 로고
    • Screening for N-glycosylated proteins by liquid chromatography mass spectrometry
    • Bunkenborg, J. et al. (2004) Screening for N-glycosylated proteins by liquid chromatography mass spectrometry. Proteomics 4, 454-465
    • (2004) Proteomics , vol.4 , pp. 454-465
    • Bunkenborg, J.1
  • 20
    • 0032875697 scopus 로고    scopus 로고
    • Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
    • Gygi, S.P. et al. (1999) Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 17, 994-999
    • (1999) Nat. Biotechnol. , vol.17 , pp. 994-999
    • Gygi, S.P.1
  • 21
    • 0036583926 scopus 로고    scopus 로고
    • Stable isotope labelling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
    • Ong, S.E. et al. (2002) Stable isotope labelling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 1, 376-386
    • (2002) Mol. Cell. Proteomics , vol.1 , pp. 376-386
    • Ong, S.E.1
  • 22
    • 0035326232 scopus 로고    scopus 로고
    • 15N-metabolic labelling
    • 15N-metabolic labelling. Anal. Chem. 73, 2132-2139
    • (2001) Anal. Chem. , vol.73 , pp. 2132-2139
    • Conrads, T.P.1
  • 23
    • 0037337310 scopus 로고    scopus 로고
    • A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signalling
    • Blagoev, B. et al. (2003) A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signalling. Nat. Biotechnol. 21, 315-318
    • (2003) Nat. Biotechnol. , vol.21 , pp. 315-318
    • Blagoev, B.1
  • 24
    • 0035384687 scopus 로고    scopus 로고
    • 18O labelling for comparative proteomics: Model studies with two serotypes of adenovirus
    • 18O labelling for comparative proteomics: model studies with two serotypes of adenovirus. Anal. Chem. 73, 2836-2842
    • (2001) Anal. Chem. , vol.73 , pp. 2836-2842
    • Yao, X.1
  • 25
    • 0000857494 scopus 로고
    • An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
    • Eng, J.K. et al. (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
  • 26
    • 0033434080 scopus 로고    scopus 로고
    • Probability-based protein identification by searching sequence databases using mass spectrometry data
    • Perkins, D.N. et al. (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
  • 27
    • 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. et al. (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
  • 28
    • 0036211823 scopus 로고    scopus 로고
    • RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimises protein identification, and archives data in a relational database
    • Field, H.I. et al. (2002) RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimises protein identification, and archives data in a relational database. Proteomics 2, 36-47
    • (2002) Proteomics , vol.2 , pp. 36-47
    • Field, H.I.1
  • 29
    • 0041358793 scopus 로고    scopus 로고
    • OLAV: Towards high-throughput tandem mass spectrometry data identification
    • Colinge, J. et al. (2003) OLAV: towards high-throughput tandem mass spectrometry data identification. Proteomics 3, 1454-1463
    • (2003) Proteomics , vol.3 , pp. 1454-1463
    • Colinge, J.1
  • 30
    • 0036808207 scopus 로고    scopus 로고
    • ProbID: A probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data
    • Zhang, N. et al. (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
  • 31
    • 0036828724 scopus 로고    scopus 로고
    • Probability-based validation of protein identifications using a modified SEQUEST algorithm
    • MacCoss, M.J. et al. (2002) Probability-based validation of protein identifications using a modified SEQUEST algorithm. Anal. Chem. 74, 5593-5599
    • (2002) Anal. Chem. , vol.74 , pp. 5593-5599
    • MacCoss, M.J.1
  • 32
    • 85086750801 scopus 로고    scopus 로고
    • Multiple LC-MS exclusion list analyses: A tool to enhance protein identification from complex biological samples
    • Abstract
    • Kristensen, D.B. et al. (2003) Multiple LC-MS exclusion list analyses: a tool to enhance protein identification from complex biological samples. Abstract at 51st ASMS Conference on Mass Spectrometry and AlliedTopics (http://www.inmerge.com/aspfolder/ASMSAbstracts.html), A031566
    • (2003) 51st ASMS Conference on Mass Spectrometry and AlliedTopics
    • Kristensen, D.B.1
  • 33
    • 0042338362 scopus 로고    scopus 로고
    • A statistical model for identifying proteins by tandem mass spectrometry
    • Nesvizhskii, A.I. et al. (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
  • 34
    • 0037108887 scopus 로고    scopus 로고
    • Empirical statistical model to estimate the accuracy of peptide identifications made by MS/ MS and database search
    • Keller, A. et al. (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
  • 35
    • 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
  • 36
    • 0034789979 scopus 로고    scopus 로고
    • Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry
    • Han, DK et al. (2001) Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry. Nat. Biotechnol. 19, 946-951
    • (2001) Nat. Biotechnol. , vol.19 , pp. 946-951
    • Han, D.K.1
  • 37
    • 0036393898 scopus 로고    scopus 로고
    • DTASelect and contrast: Tools for assembling and comparing protein identifications from shotgun proteomics
    • Tabb, D.L. et al. (2002) DTASelect and contrast: tools for assembling and comparing protein identifications from shotgun proteomics. J. Proteome Res. 1, 21-26
    • (2002) J. Proteome Res. , vol.1 , pp. 21-26
    • Tabb, D.L.1
  • 38
    • 0036745397 scopus 로고    scopus 로고
    • CHOMPER: A bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies
    • Eddes, J.S. (2002) CHOMPER: a bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies. Proteomics 2, 1097-1103
    • (2002) Proteomics , vol.2 , pp. 1097-1103
    • Eddes, J.S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.