Improved proteome coverage by using high efficiency cysteinyl peptide enrichment: The human mammary epithelial cell proteome

Proteomics

Volumn 5, Issue 5, 2005, Pages 1263-1273

  Liu, Tao ^a   Qian, Wei Jun ^a   Chen, Wan Nan U ^a   Jacobs, Jon M ^a   Moore, Ronald J ^a   Anderson, David J ^a   Gritsenko, Marina A ^a   Monroe, Matthew E ^a   Thrall, Brian D ^a   Camp II, David G ^a   Smith, Richard D ^a  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

Author keywords

Cysteinyl peptide enrichment; Human mammary epithelial cells; Low abundance; Mass spectrometry; Proteome coverage

Indexed keywords

CYSTEINE; CYSTEINYLPEPTIDE; PEPTIDE; PROTEOME; RESIN; THIOL; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; BREAST EPITHELIUM; CYSTEINYLPEPTIDE ENRICHMENT; FRACTIONATION; HUMAN; HUMAN CELL; HUMAN GENOME; ION EXCHANGE CHROMATOGRAPHY; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEOMICS; REVERSED PHASE LIQUID CHROMATOGRAPHY;

AMINO ACID SEQUENCE; CHROMATOGRAPHY, LIQUID; CYSTEINE; EPITHELIAL CELLS; HUMANS; MAMMARY GLANDS, HUMAN; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; PEPTIDES; PROTEOME;

MAMMALIA;

EID: 20144388856     PISSN: 16159853     EISSN: None     Source Type: Journal    
DOI: 10.1002/pmic.200401055     Document Type: Article

References (41)

1. Ren, S. X., Fu, G., Jiang, X. G., Zeng, R. et al., Nature 2003, 422, 888-893.
2. Venter, J. C., Remington, K., Heidelberg, J. F., Halpern, A. L. et al., Science 2004, 304, 66-74.
3. Waterston, R. H., Lindblad-Toh, K., Birney, E., Rogers, J. et al., Nature 2002, 420, 520-562.
4. Gibbs, R. A., Weinstock, G. M., Metzker, M. L., Muzny, D. M. et al., Nature 2004, 428, 493-521.
5. Venter, J. C., Adams, M. D., Myers, E. W., Li, P. W. et al., Science 2001, 291, 1304-1325.
6. Patterson, S. D., Aebersold, R., Nat. Genet. 2003, 33, 311-323.
7. Washburn, M. P., Wolters, D., Yates, J. R., Nat. Biotechnol. 2001, 19, 242-247.
8. Florens, L., Washburn, M. P., Raine, J. D., Anthony, R. M. et al., Nature 2002, 419, 520-526.
9. Peng, J., Elias, J. E., Thoreen, C. C., Licklider, L. J., Gygi, S. P., J. Proteome Res. 2003, 2, 43-50.
10. Jacobs, J. M., Mottaz, H. M., Yu, L.-R., Anderson, D. J. et al., J. Proteome Res. 2004, 3, 68-75.
11. Link, A. J., Eng, J., Schieltz, D. M., Carmack, E. et al., Nat. Biotechnol. 1999, 17, 676-682.
12. Rappsilber, J., Ryder, U., Lamond, A. I., Mann, M., Genome Res. 2002, 12, 1231-1245.
13. Garin, J., Diez, R., Kieffer, S., Dermine, J. F. et al., J. Cell Biol. 2001, 152, 165-180.
14. Journet, A., Chapel, A., Kieffer, S., Roux, F., Garin, J., Proteomics 2002, 2, 1026-1040.
15. Wubbolts, R., Leckie, R. S., Veenhuizen, P. T., Schwarzmann, G. et al., J. Biol. Chem. 2003, 278, 10963-10972.
16. Wasiak, S., Legendre-Guillemin, V., Puertollano, R., Blondeau, F. et al., J. Cell Biol. 2002, 158, 855-862.
17. Han, D. K., Eng, J., Zhou, H., Aebersold, R., Nat. Biotechnol. 2001, 19, 946-951.
18. Taylor, S. W., Fahy, E., Zhang, B., Glenn, G. M. et al., Nat. Biotechnol. 2003, 21, 281-286.
19. Bell, A. W., Ward, M. A., Blackstock, W. P., Freeman, H. N. et al., J. Biol. Chem. 2001, 276, 5152-5165.
20. Dundr, M., Misteli, T., Mol. Cell 2002, 9, 5-7.
21. Brunet, S., Thibault, P., Gagnon, E., Kearney, P. et al., Trends Cell Biol. 2003, 13, 629-638.
22. Kaji, H., Saito, H., Yamauchi, Y., Shinkawa, T. et al., Nat. Biotechnol. 2003, 21, 667-672.
23. Ficarro, S. B., McCleland, M. L., Stukenberg, P. T., Burke, D. J. et al., Nat. Biotechnol. 2002, 20, 301-305.
24. Wells, L., Vosseller, K., Cole, R. N., Cronshaw, J. M. et al., Mol. Cell. Proteomics 2002, 1, 791-804.
25. Zhang, H., Li, X. J., Martin, D. B., Aerbersold, R., Nat. Biotechnol. 2003, 27, 660-666.
26. Zhou, H., Watts, J. D., Aebersold, R., Nat. Biotechnol. 2001, 19, 375-378.
27. Oda, Y., Nagasu, T., Chait, B., Nat. Biotechnol. 2001, 19, 379-382.
28. McLachlin, D. T., Chait, B. T., Anal. Chem. 2003, 75, 6826-6836.
29. Qian, W. J., Goshe, M. B., Camp, D. G. 2nd, Yu, L. R. et al., Anal. Chem. 2003, 75, 5441-5450.
30. Gygi, S. P., Rist, B., Griffin, T. J., Eng, J., Aebersold, R., J. Proteome Res. 2002, 1, 47-54.
31. Spahr, C. S., Susin, S. A., Bures, E. J., Robinson, J. H. et al., Electrophoresis 2000, 21, 1635-1650.
32. Gevaert, K., Ghesquiere, B., Staes, A., Martens, L. et al., Proteomics 2004, 4, 897-908.
33. Borisov, O. V., Goshe, M. B., Conrads, T. P., Rakov, V. S. et al., Anal. Chem. 2002, 74, 2284-2292.
34. Liu, T., Qian, W. J., Strittmatter, E. F., Camp, D. G. et al., Anal. Chem. 2004, 76, 5345-5353.
35. Stampfer, M. R., Yaswen, P., Cancer Surv. 1993, 18, 7-34.
36. Chen, W.-N. U., Woodbury, R. L., Kathmann, L. E., Opresko, L. K. et al., J. Biol. Chem. 2004, 279, 18488-18496.
37. Shen, Y., Zhao, R., Belov, M. E., Conrads, T. P. et al., Anal. Chem. 2001, 73, 1766-1775.
38. Eng, J. K., McCormack, A. L., Yates, J. R., J. Am. Soc. Mass Spectrom. 1994, 5, 976-989.
39. Petritis, K., Kangas, L. J., Ferguson, P. L., Anderson, G. A. et al., Anal. Chem. 2003, 75, 1039-1048.
40. Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F. et al., Nat. Biotechnol. 1999, 17, 994-999.
41. Schwartz, R., Ting, C. S., King, J., Genome Res. 2001, 11, 703-709.