CHOMPER: A bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies

Proteomics

Volumn 2, Issue 9, 2002, Pages 1097-1103

  Eddes, James S ^a   Kapp, Eugene A ^a   Frecklington, David F ^a   Connolly, Lisa M ^a   Layton, Meredith J ^a   Moritz, Robert L ^a   Simpson, Richard J ^a,b  

^a WALTER AND ELIZA HALL INSTITUTE OF MEDICAL RESEARCH   (Australia)

^b ROYAL MELBOURNE HOSPITAL   (Australia)

Author keywords

Bioinformatics; Mass spectrometry; SEQUEST

Indexed keywords

AMINO ACID SEQUENCE; BIOINFORMATICS; CHOMPER; COMPUTER PROGRAM; CONFERENCE PAPER; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN STRUCTURE; PROTEOMICS; TANDEM MASS SPECTROMETRY;

ALGORITHMS; AUTOMATION; COMPUTATIONAL BIOLOGY; DATABASES; MASS SPECTROMETRY; PEPTIDES; PROTEINS; PROTEOMICS; SOFTWARE; STATISTICS;

EID: 0036745397     PISSN: 16159853     EISSN: None     Source Type: Journal    
DOI: 10.1002/1615-9861(200209)2:9<1097::AID-PROT1097>3.0.CO;2-X     Document Type: Conference Paper

References (23)

1. Blackstock, W. P., Weir, M. P., Trends Biotechnol. 1999, 17, 121-127.
2. Klose, J., Humangenetik 1975, 26, 231-243.
3. O'Farrell, P. H., J. Biol. Chem. 1975, 250, 4007-4021.
4. Görg, A., Postel, W., Gunther, S., Electrophoresis 1988, 9, 531-546.
5. Pandey, A., Mann, M., Nature 2000, 405, 837-846.
6. Simpson, R. J., Connolly, L. M., Eddes, J. S., Pereira, J. J. et al., Electrophoresis 2000, 21, 1707-1732.
7. Hoffmann, P., Ji, H., Moritz, R. L., Connolly, L. M. et al., Proteomics 2001, 1, 807-818.
8. Wall, D. B., Kachman, M. T., Gong, S., Hinderer, R. et al., Anal. Chem. 2000, 72, 1099-1111.
9. Herbert, B., Righetti, P. G., Electrophoresis 2000, 21, 3639-3648.
10. Zuo, X., Speicher, D. W., Proteomics 2002, 2, 58-68.
11. Bushey, M. M., Jorgenson, J. W., Anal. Chem. 1990, 62, 161-167.
12. Isobe, T., Uchida, K., Taoka, M., Shinkai et al., J. Chromatogr. 1991, 588, 115-123.
13. Taoka, M., Yamakuni, T., Song, S. Y., Yamakawa, Y. et al., Eur. J. Biochem. 1992, 207, 615-620.
14. Yates, J. R. III, Eng, J. K., McCormack, A. L., Schieltz, D., Anal. Chem. 1995, 67, 1426-1436.
15. Ducret, A., Van, O. I., Eng, J. K., Yates, J. R. III, Aebersold, R., Protein Sci. 1998, 7, 706-719.
16. Jaffe, H., Veeranna, Pant, H. C., Biochemistry 1998, 37, 16211-16224.
17. von Haller, P. D., Donohoe, S., Goodlett, D. R., Aebersold, R., Watts, J. D., Proteomics 2001, 1, 1010-1021.
18. Yen, T. Y., Joshi, R. K., Yan, H., Seto, N. O. et al., J. Mass Spectrom. 2000, 35, 990-1002.
19. Yates, J. R. III, Link, A. J., Schieltz, D., Methods Mol. Biol. 2000, 146, 17-26.
20. Swiderek, K. M., Davis, M. T., Lee, T. D., Electrophoresis 1998, 19, 989-997.
21. Wysocki, V. H., Tsaprailis, G., Smith, L. L., Breci, L. A., J. Mass Spectrom. 2000, 35, 1399-1406.
22. Moore, R. E., Young, M. K., Lee, T. D., J. Am. Soc. Mass Spectrom. 2002, 13, 378-386.
23. Link, A. J., Eng, J., Schieltz, D. M., Carmack, E. et al., Nat. Biotechnol. 1999, 17, 676-682.