메뉴 건너뛰기




Volumn 14, Issue 3, 2010, Pages 309-314

Meta-analysis for protein identification: A case study on yeast data

Author keywords

[No Author keywords available]

Indexed keywords

PROTEOME;

EID: 77954198983     PISSN: 15362310     EISSN: None     Source Type: Journal    
DOI: 10.1089/omi.2010.0034     Document Type: Article
Times cited : (15)

References (29)
  • 1
    • 20044372385 scopus 로고    scopus 로고
    • Comprehensive proteomics in yeast using chromatographic fractionation, gas phase fractionation, protein gel electrophoresis, and isoelectric focusing
    • Breci, L., Hattrup, E., Keeler, M., Letarte, J., Johnson, R., and Haynes, P.A. (2005). Comprehensive proteomics in yeast using chromatographic fractionation, gas phase fractionation, protein gel electrophoresis, and isoelectric focusing. Proteomics 5, 2018-2028.
    • (2005) Proteomics , vol.5 , pp. 2018-2028
    • Breci, L.1    Hattrup, E.2    Keeler, M.3    Letarte, J.4    Johnson, R.5    Haynes, P.A.6
  • 2
    • 4944232237 scopus 로고    scopus 로고
    • Combining multiple microarray studies and modeling interstudy variation
    • Choi, J.K., Yu U., Kim S., and Yoo O.J. (2003). Combining multiple microarray studies and modeling interstudy variation. Bioinformatics 19, i84-i90.
    • (2003) Bioinformatics , vol.19
    • Choi, J.K.1    Yu, U.2    Kim, S.3    Yoo, O.J.4
  • 4
    • 20144381803 scopus 로고    scopus 로고
    • Integration of peptide sequences obtained by high-throughput mass spectrometry with the Human genome
    • Desiere, F., Deutsch, E.W., Nesvizhskii, A.I., Mallick, P., King, N.L., Eng, J.K., et al. (2006). Integration of peptide sequences obtained by high-throughput mass spectrometry with the Human genome. Genome Biol. 6, R9.
    • (2006) Genome Biol , vol.6
    • Desiere, F.1    Deutsch, E.W.2    Nesvizhskii, A.I.3    Mallick, P.4    King, N.L.5    Eng, J.K.6
  • 5
    • 41349096900 scopus 로고    scopus 로고
    • Data analysis and tools for tandem mass spectrometry in proteomics
    • Deutsch, E.W., Lam, H., and Aebersold, R. (2008). Data analysis and tools for tandem mass spectrometry in proteomics. Physiol. Genomics 33, 18-25.
    • (2008) Physiol. Genomics , vol.33 , pp. 18-25
    • Deutsch, E.W.1    Lam, H.2    Aebersold, R.3
  • 6
    • 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
  • 7
    • 76149098839 scopus 로고    scopus 로고
    • Unbiased statistical analysis for multi-stage proteomic search strategies
    • Everett, L., Bierl, C., and Master, S.R. (2010). Unbiased statistical analysis for multi-stage proteomic search strategies. J. Proteome Res. 9, 700-707.
    • (2010) J. Proteome Res. , vol.9 , pp. 700-707
    • Everett, L.1    Bierl, C.2    Master, S.R.3
  • 8
    • 0030823158 scopus 로고    scopus 로고
    • Effects of age, sex, and ethnicity on the association between Apolipoprotein e genotype and Alzheimer disease
    • Farrer, L.A., Cupples, A., Haines, J.L., Hyman, B., Kukull, W.A., Mayeux, R., et al. (1997). Effects of age, sex, and ethnicity on the association between Apolipoprotein E genotype and Alzheimer disease. JAMA 278, 1349-1356.
    • (1997) JAMA , vol.278 , pp. 1349-1356
    • Farrer, L.A.1    Cupples, A.2    Haines, J.L.3    Hyman, B.4    Kukull, W.A.5    Mayeux, R.6
  • 9
    • 0037442649 scopus 로고    scopus 로고
    • A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes
    • Fenyö, D., and Beavis, R.C. (2003). A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes. Anal. Chem. 75, 768-774.
    • (2003) Anal. Chem. , vol.75 , pp. 768-774
    • Fenyö, D.1    Beavis, R.C.2
  • 11
    • 0002100348 scopus 로고
    • Primary, secondary, and meta-analysis of research
    • Glass, G.V. (1976). Primary, secondary, and meta-analysis of research. Educat. Res. 5, 3-8.
    • (1976) Educat. Res. , vol.5 , pp. 3-8
    • Glass, G.V.1
  • 12
    • 77954202405 scopus 로고    scopus 로고
    • Jim Gray on eScience: A transformed scientific method
    • T. Hey, S. Tansley, and K. Tolle, eds. (Microsoft Research, Redmond, WA)
    • Gray, J. (2009). Jim Gray on eScience: a transformed scientific method. In The Fourth Paradigm: Data-intensive Scientific Discovery. T. Hey, S. Tansley, and K. Tolle, eds. (Microsoft Research, Redmond, WA), pp. xvii-xxxi.
    • (2009) The Fourth Paradigm: Data-intensive Scientific Discovery
    • Gray, J.1
  • 13
    • 0032875697 scopus 로고    scopus 로고
    • Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
    • Gygi, S.P., Rist, B., Gerber, S.A., Turecek, F., Gelb, M.H., and Aebersold, R. (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    Rist, B.2    Gerber, S.A.3    Turecek, F.4    Gelb, M.H.5    Aebersold, R.6
  • 14
    • 77953861977 scopus 로고    scopus 로고
    • Estimating false discovery rates for peptide and protein identification using randomized databases
    • press
    • Hather, G., Higdon, R., Bauman, A., von Haller, P.D., and Kolker, E. (2010). Estimating false discovery rates for peptide and protein identification using randomized databases. Proteomics (in press).
    • (2010) Proteomics
    • Hather, G.1    Higdon, R.2    Bauman, A.3    Von Haller, P.D.4    Kolker, E.5
  • 15
    • 33847252600 scopus 로고    scopus 로고
    • A predictive model for identifying proteins by a single peptide match
    • Higdon, R., and Kolker, E. (2007) A predictive model for identifying proteins by a single peptide match. Bioinformatics 23, 277-280.
    • (2007) Bioinformatics , vol.23 , pp. 277-280
    • Higdon, R.1    Kolker, E.2
  • 16
    • 13844254513 scopus 로고    scopus 로고
    • LIP index for classification using MS=MS and Sequest search via logistic regression
    • Higdon, R., Kolker, N., Picone, A., van Belle, G., and Kolker, E. (2004). LIP index for classification using MS=MS and Sequest search via logistic regression. OMICS 8, 357-369.
    • (2004) OMICS , vol.8 , pp. 357-369
    • Higdon, R.1    Kolker, N.2    Picone, A.3    Van Belle, G.4    Kolker, E.5
  • 17
    • 32544455331 scopus 로고    scopus 로고
    • Randomized sequence databases for tandem mass spectrometry peptide and protein identification
    • Higdon, R., Hogan, J.M., Van Belle, G., and Kolker, E. (2005). Randomized sequence databases for tandem mass spectrometry peptide and protein identification. OMICS 9, 364-379.
    • (2005) OMICS , vol.9 , pp. 364-379
    • Higdon, R.1    Hogan, J.M.2    Van Belle, G.3    Kolker, E.4
  • 18
    • 37349003083 scopus 로고    scopus 로고
    • Experiment-specific estimation of peptide identification probabilities using a randomized database
    • Higdon, R., Hogan, J.M., Kolker, N., van Belle, G., and Kolker E. (2007). Experiment-specific estimation of peptide identification probabilities using a randomized database. OMICS 11, 351-365.
    • (2007) OMICS , vol.11 , pp. 351-365
    • Higdon, R.1    Hogan, J.M.2    Kolker, N.3    Van Belle, G.4    Kolker, E.5
  • 19
    • 43349084908 scopus 로고    scopus 로고
    • A note on the false discovery rate and inconsistent comparison between experiments
    • Higdon, R., van Belle, G., abd Kolker, E. (2008). A note on the false discovery rate and inconsistent comparison between experiments. Bioinformatics 24, 1225-1228.
    • (2008) Bioinformatics , vol.24 , pp. 1225-1228
    • Higdon, R.1    Van Belle, G.2    Abd Kolker, E.3
  • 20
    • 33750965890 scopus 로고    scopus 로고
    • Comparative microarray analysis
    • Larsson, O., Wennmalm, K., and Sandberg, R. (2006). Comparative microarray analysis. OMICS 10, 381-397.
    • (2006) OMICS , vol.10 , pp. 381-397
    • Larsson, O.1    Wennmalm, K.2    Sandberg, R.3
  • 21
    • 4444379642 scopus 로고    scopus 로고
    • Characterizing complex peptide mixtures using a multi-dimensional liquid chromatography-mass spectrometry system: Saccharomyces cerevisiae as a model system
    • Maynard, D.M., Masudaa, J., Yang, X., Kowalak, J.A., and Markey, S.P. (2004). Characterizing complex peptide mixtures using a multi-dimensional liquid chromatography-mass spectrometry system: Saccharomyces cerevisiae as a model system. J. Chromatogr. B 810, 69-76.
    • (2004) J. Chromatogr. B , vol.810 , pp. 69-76
    • Maynard, D.M.1    Masudaa, J.2    Yang, X.3    Kowalak, J.A.4    Markey, S.P.5
  • 22
    • 0141450348 scopus 로고    scopus 로고
    • Comparison and meta-analysis of microarray data: From the bench to the computer desk
    • Moreau, Y., Aerts, S., De Moor, B., De Strooper, B., and Dabrowski, M. (2003). Comparison and meta-analysis of microarray data: from the bench to the computer desk. Trends Genet. 19, 570-577.
    • (2003) Trends Genet , vol.19 , pp. 570-577
    • Moreau, Y.1    Aerts, S.2    De Moor, B.3    De Strooper, B.4    Dabrowski, M.5
  • 23
    • 0033434080 scopus 로고    scopus 로고
    • Probability-based protein identification by searching sequence databases using mass spectrometry data
    • Perkins, D.N., Pappin, D.J., Creasy, D.M., and Cottrell, J.S. (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.2    Creasy, D.M.3    Cottrell, J.S.4
  • 24
    • 33745828376 scopus 로고    scopus 로고
    • Quality control metrics for LC-MS feature detection tools demonstrated on Saccharomyces cerevisiae proteomic profiles
    • Piening, B.D., Wang, P., Bangur, C.S., Whiteaker, J., Zhang, H., Feng, L.C., et al. (2006). Quality control metrics for LC-MS feature detection tools demonstrated on Saccharomyces cerevisiae proteomic profiles. J. Proteome Res. 5, 1527-1534.
    • (2006) J. Proteome Res. , vol.5 , pp. 1527-1534
    • Piening, B.D.1    Wang, P.2    Bangur, C.S.3    Whiteaker, J.4    Zhang, H.5    Feng, L.C.6
  • 27
    • 67650479361 scopus 로고    scopus 로고
    • NCBI Peptidome: A new public repository for mass spectrometry peptide identifications
    • Slotta, D.J., Barrett, T., and Edgar, R. (2009). NCBI Peptidome: a new public repository for mass spectrometry peptide identifications. Nature Biotech. 27, 600-601.
    • (2009) Nature Biotech , vol.27 , pp. 600-601
    • Slotta, D.J.1    Barrett, T.2    Edgar, R.3
  • 28
    • 56149086397 scopus 로고    scopus 로고
    • Decision tree-driven tandem mass spectrometry for shotgun proteomics
    • Swaney, D.L., McAlister, G.C., and Coon, J.J. (2008). Decision tree-driven tandem mass spectrometry for shotgun proteomics. Nat. Methods 5, 959-964.
    • (2008) Nat. Methods , vol.5 , pp. 959-964
    • Swaney, D.L.1    McAlister, G.C.2    Coon, J.J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.