Improved label-free LC-MS analysis by wavelet-based noise rejection

Journal of Biomedicine and Biotechnology

Volumn 2010, Issue , 2010, Pages

  Cappadona, Salvatore ^a   Nanni, Paolo ^b   Benevento, Marco ^b   Levander, Fredrik ^c   Versura, Piera ^d   Roda, Aldo ^b   Cerutti, Sergio ^a   Pattini, Linda ^a  

^a POLITECNICO DI MILANO   (Italy)

^b UNIVERSITY OF BOLOGNA   (Italy)

^c LUND UNIVERSITY   (Sweden)

^d UNIVERSITY OF BOLOGNA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ISOTOPE; EYE PROTEIN; PEPTIDE FRAGMENT;

AMINO ACID SEQUENCE; ARTICLE; CASE REPORT; COMPUTER PROGRAM; FEMALE; HUMAN; LIQUID CHROMATOGRAPHY; MALE; PROTEIN ANALYSIS; PROTEIN EXPRESSION; QUALITY CONTROL; SENSITIVITY ANALYSIS; SIGNAL NOISE RATIO; TANDEM MASS SPECTROMETRY; WAVELET ANALYSIS; CHEMISTRY; DRY EYE; LACRIMAL FLUID; MASS SPECTROMETRY; METABOLISM; METHODOLOGY; PROTEOMICS; SIGNAL PROCESSING;

CHROMATOGRAPHY, LIQUID; DRY EYE SYNDROMES; EYE PROTEINS; HUMANS; MASS SPECTROMETRY; PEPTIDE FRAGMENTS; PROTEOMICS; SIGNAL PROCESSING, COMPUTER-ASSISTED; SOFTWARE; TEARS;

EID: 77951919202     PISSN: 11107243     EISSN: 11107251     Source Type: Journal    
DOI: 10.1155/2010/131505     Document Type: Article

References (15)

1. A. Iliuk, J. Galan, and W. A. Tao, "Playing tag with quantitative proteomics," Analytical and Bioanalytical Chemistry, vol. 393, no. 2, pp. 503-513, 2009. (Pubitemid 50296309)
2. M. Bantscheff, M. Schirle, G. Sweetman, J. Rick, and B. Kuster, "Quantitative mass spectrometry in proteomics: a critical review," Analytical and Bioanalytical Chemistry, vol. 389, no. 4, pp. 1017-1031, 2007. (Pubitemid 47482251)
3. A. H. P. America and J. H. G. Cordewener, "Comparative LC-MS: a landscape of peaks and valleys," Proteomics, vol. 8, no. 4, pp. 731-749, 2008. (Pubitemid 351362933)
4. M. Hilario, A. Kalousis, C. Pellegrini, and M. Müller, "Processing and classification of protein mass spectra," Mass Spectrometry Reviews, vol. 25, no. 3, pp. 409-449, 2006.
5. J. Listgarten and A. Emili, "Statistical and computational methods for comparative proteomic profiling using liquid chromatography-tandem mass spectrometry," Molecular and Cellular Proteomics, vol. 4, no. 4, pp. 419-434, 2005. (Pubitemid 40590562)
6. S. Cappadona, F. Levander, M. Jansson, P. James, S. Cerutti, and L. Pattini, "Wavelet-based method for noise characterization and rejection in high-performance liquid chromatogra-phy coupled to mass spectrometry," Analytical Chemistry, vol. 80, no. 13, pp. 4960-4968, 2008. (Pubitemid 351956303)
7. P. Nanni, L. Mezzanotte, G. Roda, et al., "Differential pro-teomic analysis of HT29 Cl.16E and intestinal epithelial cells by LC ESI/QTOF mass spectrometry," Journal of Proteomics, vol. 72, no. 5, pp. 865-873, 2009.
8. P. Nanni, F. Levander, G. Roda, A. Caponi, P. James, and A. Roda, "A label-free nano-liquid chromatography-mass spectrometry approach for quantitative serum peptidomics in Crohn's disease patients," Journal of Chromatography B, vol. 877, no. 27, pp. 3127-3136, 2009.
9. W. Windig, J. M. Phalp, and A. W. Payne, "A noise and background reduction method for component detection in liquid chromatography/mass spectrometry," Analytical Chemistry, vol. 68, no. 20, pp. 3602-3606, 1996.
10. V. P. Andreev, T. Rejtar, H.-S. Chen, E. V. Moskovets, A. R. Ivanov, and B. L. Karger, "A universal denoising and peak picking algorithm for LC-MS based on matched filtration in the chromatographic time domain," Analytical Chemistry, vol. 75, no. 22, pp. 6314-6326, 2003. (Pubitemid 37420627)
11. M. Bellew, M. Coram, M. Fitzgibbon, et al., "A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS," Bioinformatics, vol. 22, no. 15, pp. 1902-1909, 2006. (Pubitemid 44283036)
12. J. Häkkinen, G. Vincic, O. Månsson, K. Wårell, and F. Levander, "The proteios software environment: an extensible multiuser platform for management and analysis of pro-teomics data," Journal of Proteome Research, vol. 8, no. 6, pp. 3037-3043, 2009.
13. P. Versura, P. Nanni, A. Bavelloni, et al., "Tear protein changes in mild evaporative dry eye," submitted.
14. "Report of the Dry Eye Workshop (DEWS)," The Ocular Surface, vol. 5, no. 2, 2007.
15. P. Versura, M. Frigato, R. Mulé, N. Malavolta, and E. C. Campos, "A proposal of new ocular items in Sjögren's syndrome classification criteria," Clinical and Experimental Rheumatology, vol. 24, no. 5, pp. 567-572, 2006. (Pubitemid 44911252)