Comparative bioinformatic analysis of complete proteomes and protein parameters for cross-species identification in proteomics

Proteomics

Volumn 2, Issue 10, 2002, Pages 1392-1405

  Lester, Patrick J ^a   Hubbard, Simon J ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

Bioinformatics; Cross species; Peptide mass fingerprinting; Protein identification

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENOME; BIOINFORMATICS; DATA BASE; GENE SEQUENCE; PEPTIDE ANALYSIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN PROCESSING; PROTEOMICS; SPECIES DIFFERENTIATION; ALGORITHM; BIOLOGY; CHEMISTRY; ESCHERICHIA COLI; GENETICS; GENOME; MASS SPECTROMETRY; METABOLISM; METHODOLOGY; PH; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES; SPECIES DIFFERENCE;

BACTERIA (MICROORGANISMS); EUKARYOTA;

AMINO ACID; PROTEOME;

ALGORITHMS; AMINO ACIDS; COMPUTATIONAL BIOLOGY; DATABASES; ESCHERICHIA COLI; GENOME, BACTERIAL; GENOME, FUNGAL; HYDROGEN-ION CONCENTRATION; MASS SPECTROMETRY; PROTEOME; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES; SPECIES SPECIFICITY;

EID: 0036807946     PISSN: 16159853     EISSN: None     Source Type: Journal    
DOI: 10.1002/1615-9861(200210)2:10<1392::AID-PROT1392>3.0.CO;2-L     Document Type: Article

References (35)

1. Gevaert, K., Vandekerckhove, J., Electrophoresis 2000, 21, 1145-1154.
2. Lahm, H., Langen, H., Electrophoresis 2000, 21, 2105-2114.
3. Gygi, S. R, Aebersold, R. A., Curr. Opin. Chem. Biol 2000, 4, 489-494.
4. Anderson, J. S., Mann, M., FEBS Lett. 2000, 480, 25-31.
5. Yates III, J. R., Electrophoresis 1998, 19, 893-900.
6. Perkins, D. N., Pappin, D. J. C., Creasy, D. M., Cottrell, J. S., Electrophoresis 1999, 20, 3551-3567.
7. Mann, M., Horjrup, P., Roepstorff, P., Biol. Mass. Spectrom. 1993, 22, 3338-345.
8. Henzel, W. J., Billeci, T. M., Stults, J. T., Wong, S. C., Proc. Natl. Acad. Sci. USA 1993, 90, 5011-5015.
9. Jensen, O. N., Podtelejnikov, A. V., Mann, M., Anal. Chem. 1997, 69, 4741-4750.
10. Berndt, P., Hobohm, U., Langen, H., Electrophoresis 1999, 20, 3521-3526.
11. Pappin, D. J. C., Rahman, D., Hansen, H. F., Bartlet-Jones, M. et al., Mass Spectrom. Biol. Sci. 1996, 135-150.
12. Mann, M., Wilm, M., Anal. Chem. 1994, 68, 1-8.
13. Yates III, J. R., Eng, J. K., McCormack, A. L., Schieltz, D., Anal. Chem. 1995, 67, 1426-1436.
14. Shevchenko, A., Sunyaev, S., Loboda, A., Shevchenko, A. et al., Anal. Chem 2000, 72, 2132-2141.
15. Krutchinsky, A. N., Zhang, W., Chait, B., J. Am. Soc. Mass Spectrom. 2000, 11, 493-504.
16. Gevaert, K., Demol, H., Martens, L., Hoorelbeke, B. et al., Electrophoresis 2001, 22, 1645-1651.
17. Sickmann, A., Marcus, K., Schafer, H., Butt-Dorje, E. et al., Electrophoresis 2001, 22, 1669-1676.
18. Belghazi, M., Bathany, K., Hountondji, C., Grandier-Vazeille, X. et al., Proteomics 2001, 1, 946-945.
19. Cordwell, S. J., Wilkins, M. R., Cerpa-Poljak, A., Gooley, A. A. et al., Electrophoresis 1995, 16, 438-442.
20. Wilkins, M. R., Williams, K. L., J. Theor. Bio. 1997, 186, 7-15.
21. Wilkins, M. R., Gasteiger, E., Wheeler, C. H., Lindskog, I. et al., Electrophoresis 1998, 19, 3199-3206.
22. Cordwell, S. J., Humphrey-Smith, I., Electrophoresis 1997, 18, 1410-1417.
23. Molloy, M. P., Phadke, N. D., Maddock, J. R., Andrews, P. C., Electrophoresis 2001, 22, 1686-1696.
24. Imin, N., Kerim, T., Weinman, J. J., Rolfe, B. G., Proteomics 2001, 1, 1149-1161.
25. Verrills, N. M., Harry, J. H., Walsh, B. J., Hains, P. G., Robinson, E. S., Electrophoresis 2000, 21, 3810-3822.
26. Wasinger, V. C., Urquhart, B. L., Humphrey-Smith, I., Electrophoresis 1999, 20, 2196-2203.
27. Cordwell, S. J., Wasinger, V. C., Cerpa-Poljak, A., Duncan, M. W., Humphrey-Smith, I., J. Mass Spectrom. 1997, 32, 370-378.
28. Clauser, K. R., Baker, P., Burlingame, A. L., Anal. Chem. 1999, 71, 2871-2882.
29. Shevchenko, A., Sunyaev, S., Loboda, A., Shevchenko, A., et al., Anal. Chem. 2001, 73, 1917-1926.
30. Zhang, W. Z., Chait, B. T., Anal. Chem. 2000, 72, 2482-2489.
31. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. et al., J. Mol. Biol. 1990, 215, 403-410.
32. Thompson, J. D, Higgins, D. G., Gibson, T. J., Nucleic Acids Res. 1994, 22, 4673-4680.
33. Sidhu, K. S., Sangvanich, P., Brancia, F. L, Sullivan, A. G. et al., Proteomics 2001, 1, 1368-1377.
34. Liu, J., Rost, B., Protein Sci. 2001, 10, 1970-1979.
35. Eriksson, J., Fenyo, D., Proteomics 2002, 2, 262-270.