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Volumn 9, Issue 15, 2009, Pages 3869-3876

Optimal analysis of complex protein mass spectra

Author keywords

Biomarker discovery; Calibration; Deconvolution; Mixture models; MS

Indexed keywords

BIOLOGICAL MARKER;

EID: 68549087355     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200701064     Document Type: Article
Times cited : (8)

References (24)
  • 2
    • 33845570917 scopus 로고    scopus 로고
    • Annotated regions of significance of SELDI-TOF-MS spectra for detecting protein biomarkers
    • Tan, C. S., Ploner, A., Quandt, A., Lehtiö, J. et al., Annotated regions of significance of SELDI-TOF-MS spectra for detecting protein biomarkers. Proteomics 2006, 6, 6124-6133.
    • (2006) Proteomics , vol.6 , pp. 6124-6133
    • Tan, C.S.1    Ploner, A.2    Quandt, A.3    Lehtiö, J.4
  • 3
    • 18744411077 scopus 로고    scopus 로고
    • Improved peak detection and quantification of mass spectrometry data acquired from surface-enhanced laser desorption and ionization by denoising spectra with the undecimated discrete wavelet transform
    • Coombes, K. R., Tsavachidis, S., Morris, J. S., Baggerly, K. A. et al., Improved peak detection and quantification of mass spectrometry data acquired from surface-enhanced laser desorption and ionization by denoising spectra with the undecimated discrete wavelet transform. Proteomics 2005, 5, 4107-4117.
    • (2005) Proteomics , vol.5 , pp. 4107-4117
    • Coombes, K.R.1    Tsavachidis, S.2    Morris, J.S.3    Baggerly, K.A.4
  • 4
    • 16244409824 scopus 로고    scopus 로고
    • A new mathematical procedure to evaluate peaks in complex chromatograms
    • Steffen, B., M. uller, K. P., Komenda, M., Koppmann, R., Schaub, A., A new mathematical procedure to evaluate peaks in complex chromatograms. J. Chromatogr. A 2005, 1071, 239-246.
    • (2005) J. Chromatogr. A , vol.1071 , pp. 239-246
    • Steffen, B.M.1    uller, K.P.2    Komenda, M.3    Koppmann, R.4    Schaub, A.5
  • 5
    • 27844609301 scopus 로고    scopus 로고
    • Automatic program for peak detection and deconvolution of multi-overlapped chromatographic signals part I: Peak detection
    • Vivó-Truyols, G., Torres-Lapasió, J. R., van Nederkassel, A. M., Heyden, Y. V., Massart, D. L., Automatic program for peak detection and deconvolution of multi-overlapped chromatographic signals part I: peak detection. J. Chromatogr. A 2005, 1096, 133-145.
    • (2005) J. Chromatogr. A , vol.1096 , pp. 133-145
    • Vivó-Truyols, G.1    Torres-Lapasió, J.R.2    van Nederkassel, A.M.3    Heyden, Y.V.4    Massart, D.L.5
  • 6
    • 27844568915 scopus 로고    scopus 로고
    • Automatic program for peak detection and deconvolution of multi-overlapped chromatographic signals part II: Peak model and deconvolution algorithms
    • Vivó-Truyols, G., Torres-Lapasió, J. R., van Nederkassel, A. M., Heyden, Y. V., Massart, D. L., Automatic program for peak detection and deconvolution of multi-overlapped chromatographic signals part II: peak model and deconvolution algorithms. J. Chromatogr. A 2005, 1096, 146-155.
    • (2005) J. Chromatogr. A , vol.1096 , pp. 146-155
    • Vivó-Truyols, G.1    Torres-Lapasió, J.R.2    van Nederkassel, A.M.3    Heyden, Y.V.4    Massart, D.L.5
  • 7
    • 23044473271 scopus 로고    scopus 로고
    • Improving feature detection and analysis of surface-enhanced laser desorption/ionization-time of flight mass spectra
    • Carlson, S. M., Najmi, A., Whitin, J. C., Cohen, H. J., Improving feature detection and analysis of surface-enhanced laser desorption/ionization-time of flight mass spectra. Proteomics 2005, 5, 2778-2788.
    • (2005) Proteomics , vol.5 , pp. 2778-2788
    • Carlson, S.M.1    Najmi, A.2    Whitin, J.C.3    Cohen, H.J.4
  • 8
    • 16344384887 scopus 로고    scopus 로고
    • The importance of experimental design in proteomic mass spectrometry experiments: Some cautionary tales
    • Hu, J., Coombes, K. R., Morris, J. S., Baggerly, K. A., The importance of experimental design in proteomic mass spectrometry experiments: some cautionary tales. Brief. Funct. Genomic. Proteomic. 2005, 3, 322-331.
    • (2005) Brief. Funct. Genomic. Proteomic , vol.3 , pp. 322-331
    • Hu, J.1    Coombes, K.R.2    Morris, J.S.3    Baggerly, K.A.4
  • 10
    • 65349134094 scopus 로고    scopus 로고
    • Proteomic analysis of human papillomavirus-related oral squamous cell carcinoma: Identification of thioredoxin and epidermal-fatty acid binding protein as upregulated protein markers in microdissected tumor tissue
    • Melle, C., Ernst, G., Winkler, R., Schimmel, B. et al., Proteomic analysis of human papillomavirus-related oral squamous cell carcinoma: identification of thioredoxin and epidermal-fatty acid binding protein as upregulated protein markers in microdissected tumor tissue. Proteomics 2009, 9, 2193-2201.
    • (2009) Proteomics , vol.9 , pp. 2193-2201
    • Melle, C.1    Ernst, G.2    Winkler, R.3    Schimmel, B.4
  • 11
    • 65349178924 scopus 로고    scopus 로고
    • Biomarker discovery in asthma-related inflammation and remodeling
    • Calvo, F. Q., Fillet, M., de Seny, D., Meuwis, M.-A. et al., Biomarker discovery in asthma-related inflammation and remodeling. Proteomics 2009, 9, 2163-2170.
    • (2009) Proteomics , vol.9 , pp. 2163-2170
    • Calvo, F.Q.1    Fillet, M.2    de Seny, D.3    Meuwis, M.-A.4
  • 12
    • 65349138192 scopus 로고    scopus 로고
    • Benchmarking currently available seldi-tof ms preprocessing techniques
    • Emanuele, V. A., Gurbaxani, B. M., Benchmarking currently available seldi-tof ms preprocessing techniques. Proteomics 2009, 9, 1754-1762.
    • (2009) Proteomics , vol.9 , pp. 1754-1762
    • Emanuele, V.A.1    Gurbaxani, B.M.2
  • 13
    • 33749646152 scopus 로고    scopus 로고
    • Peak quantification in surface-enhanced laser desorption/ionization by using mixture models
    • Dijkstra, M., Roelofsen, H., Vonk, R. J., Jansen, R. C., Peak quantification in surface-enhanced laser desorption/ionization by using mixture models. Proteomics 2006, 6, 5106-5116.
    • (2006) Proteomics , vol.6 , pp. 5106-5116
    • Dijkstra, M.1    Roelofsen, H.2    Vonk, R.J.3    Jansen, R.C.4
  • 14
    • 34748853919 scopus 로고    scopus 로고
    • Analyses of intricate kinetics of the serum proteome during and after colon surgery by protein expression time series
    • Roelofsen, H., Alvarez-Llamas, G., Dijkstra, M., Breitling, R. et al., Analyses of intricate kinetics of the serum proteome during and after colon surgery by protein expression time series. Proteomics 2007, 7, 3219-3228.
    • (2007) Proteomics , vol.7 , pp. 3219-3228
    • Roelofsen, H.1    Alvarez-Llamas, G.2    Dijkstra, M.3    Breitling, R.4
  • 15
    • 25144448206 scopus 로고    scopus 로고
    • Algorithms for alignment of mass spectrometry proteomic data
    • Jeffries, N., Algorithms for alignment of mass spectrometry proteomic data. Bioinformatics 2005, 21, 3066-3073.
    • (2005) Bioinformatics , vol.21 , pp. 3066-3073
    • Jeffries, N.1
  • 16
    • 68549115097 scopus 로고    scopus 로고
    • Ciphergen Biosystems Inc., Proteinchip Software 3.1 Operation Manual 2002.
    • Ciphergen Biosystems Inc., Proteinchip Software 3.1 Operation Manual 2002.
  • 17
    • 84936916896 scopus 로고
    • Robust locally weighted regression and smoothing scatterplots
    • Cleveland, W. S., Robust locally weighted regression and smoothing scatterplots. J. Am. Stat. Assoc. 1979, 74, 829-836.
    • (1979) J. Am. Stat. Assoc , vol.74 , pp. 829-836
    • Cleveland, W.S.1
  • 19
    • 0035122575 scopus 로고    scopus 로고
    • Charge reduction lowers mass resolving power for isotopically resolved electrospray ionization fourier transform ion cyclotron resonance mass spectra
    • Marshall, A. G., Hendrickson, C. L., Charge reduction lowers mass resolving power for isotopically resolved electrospray ionization fourier transform ion cyclotron resonance mass spectra. Rapid commun. Mass Spectrom. 2001, 15, 232-235.
    • (2001) Rapid commun. Mass Spectrom , vol.15 , pp. 232-235
    • Marshall, A.G.1    Hendrickson, C.L.2
  • 20
    • 58149209843 scopus 로고
    • Determination of monoisotopic masses and ion populations for large biomolecules from resolved isotopic distributions
    • Senko, M., Beu, S., McLafferty, F., Determination of monoisotopic masses and ion populations for large biomolecules from resolved isotopic distributions. J. Am. Soc. Mass Spectrom. 1995, 6, 229-233.
    • (1995) J. Am. Soc. Mass Spectrom , vol.6 , pp. 229-233
    • Senko, M.1    Beu, S.2    McLafferty, F.3
  • 21
    • 0142008803 scopus 로고    scopus 로고
    • A data-analytic strategy for protein biomarker discovery: Profiling of high-dimensional proteomic data for cancer detection
    • Yasui, Y., Pepe, M., Thompson, M. L., Adam, B.-L. et al., A data-analytic strategy for protein biomarker discovery: profiling of high-dimensional proteomic data for cancer detection. Biostatistics 2003, 4, 449-463.
    • (2003) Biostatistics , vol.4 , pp. 449-463
    • Yasui, Y.1    Pepe, M.2    Thompson, M.L.3    Adam, B.-L.4
  • 23
    • 0002629270 scopus 로고
    • Maximum likelihood from incomplete data via the EM algorithm
    • Dempster, A., Laird, D., Rubin, J., Maximum likelihood from incomplete data via the EM algorithm. J. R. Stat. Soc. Series B 1977, 39, 1-38.
    • (1977) J. R. Stat. Soc. Series B , vol.39 , pp. 1-38
    • Dempster, A.1    Laird, D.2    Rubin, J.3
  • 24
    • 59249098545 scopus 로고    scopus 로고
    • Tierney, L., Rossini, A. J., Li, N., Snow: a parallel computing framework for the r system. Int. J. Parallel Program. 2009, 37, 78-90.
    • Tierney, L., Rossini, A. J., Li, N., Snow: a parallel computing framework for the r system. Int. J. Parallel Program. 2009, 37, 78-90.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.