Development of a mass fingerprinting tool for automated interpretation of oligosaccharide fragmentation data

Proteomics

Volumn 4, Issue 6, 2004, Pages 1650-1664

  Joshi, Hiren J ^a   Harrison, Mathew J ^a   Schulz, Benjamin L ^a   Cooper, Catherine A ^a   Packer, Nicolle H ^a   Karlsson, Niclas G ^a  

^a Proteome Systems Ltd   (Australia)

Author keywords

Bioinformatics; Database; Fragmentation; Mass spectrometry; Oligosaccharide

Indexed keywords

DNA FRAGMENT;

ARTICLE; AUTOMATION; BIOINFORMATICS; CARBOHYDRATE ANALYSIS; COMPUTER ANALYSIS; COMPUTER PROGRAM; DNA FINGERPRINTING; ELECTROSPRAY MASS SPECTROMETRY; MASS SPECTROMETRY; PRIORITY JOURNAL; STRUCTURE ANALYSIS; TANDEM MASS SPECTROMETRY;

ALGORITHMS; CARBOHYDRATE SEQUENCE; COMPUTATIONAL BIOLOGY; DATABASES, FACTUAL; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; MONOSACCHARIDES; OLIGOSACCHARIDES;

EID: 2942568109     PISSN: 16159853     EISSN: None     Source Type: Journal    
DOI: 10.1002/pmic.200300784     Document Type: Article

References (33)

1. Varki, A., Glycobiology 1993, 3, 97-130.
2. Vosseller, K., Wells, L., Hart, G. W., Biochimie 2001, 83, 575-581.
3. Kannagi, R., Curr. Opin. Struct. Biol. 2002, 12, 599-608.
4. Henzel, W. J., Billeci, T. M., Stults, J. T., Wong, S. C. et al., Proc. Natl. Acad. Sci. USA 1993, 90, 5011-5015.
5. Mann, M., Hojrup, P., Roepstorff, P., Biol. Mass Spectrom. 1993, 22, 338-345.
6. Eng, J. K., McCormack, A. L., Yates, III., J. Am. Soc. Mass Spectrom. 1994, 5, 976-989.
7. Kranz, C., Denecke, J., Lehrman, M. A., Ray, S. et al., J. Clin. Invest. 2001, 108, 1613-1619.
8. Küster, B., Wheeler, S. W., Hunter, A. P., Dwek, R. A. et al., Anal. Biochem. 1997, 250, 82-101.
9. Charlwood, J., Skehel, J. M., Camilleri, P., Anal. Biochem. 2000, 284, 49-59.
10. Wilson, N. L., Schulz, B. L., Karlsson, N. G., Packer, N. H., J. Proteome Res. 2002, 1, 521-529.
11. Schulz, B. L., Packer, N. H., Karlsson, N. G., Anal. Chem. 2002, 74, 6088-6097.
12. Dell, A., Morris, H. R., Science 2001, 291, 2351-2356.
13. Linsley, K. B., Chan, S.-Y., Chan, S., Reinhold, B. B. et al., Anal. Biochem. 1994, 219, 207-217.
14. Mechref, Y., Novotny, M. V., Chem. Rev. 2002, 102, 321-369.
15. Harvey, D. J., Bateman, R. H., Green, M. R., J. Mass Spectrom. 1997, 32, 167-187.
16. Pfenninger, A., Karas, M., Finke, B., Stahl, B., J. Am. Soc. Mass Spectrom. 2002, 13, 1331-1340.
17. Chai, W., Piskarev, V., Lawson, A. M., J. Am. Soc. Mass Spectrom. 2002, 13, 670-679.
18. Cooper, C. A., Joshi, H. J., Harrison, M. J., Wilkins, M. R. et al., Nucleic Acids Res. 2003, 31, 511-513.
19. Koizumi, K., J. Chromatogr. A 1996, 720, 119-126.
20. Packer, N. H., Harrison, M. J., Electrophoresis 1998, 19, 1872-1882.
21. Thomsson, K. A., Karlsson, N. G., Hansson, G. C., J. Chromatogr. A 1999, 854, 131-139.
22. Kawasaki, N., Ohta, M., Hyuga, M., Hayakawa, T., Anal. Biochem. 2000, 285, 82-92.
23. Gaucher, S. P., Morrow, J., Leary, J. A., Anal. Chem. 2000, 72, 2331-2336.
24. Ethier, M., Saba, J. A., Ens, W., Standing, K. G. et al., Rapid Commun. Mass Spectrom. 2002, 16, 1743-1754.
25. Karlsson, N. G., Schulz, B. L., Packer, N. H., J. Am. Soc. Mass Spectrom. 2003, in press.
26. Karlsson, N. G., Olson, F. J., Jovall, P.-Å., Andersch, Y. et al., Biochem. J. 2000, 350, 805-814.
27. rd ed. Addison-Wesley, Boston, MA, USA 1997.
28. Domon, B., Costello, C. E., Glycoconj. J. 1988, 5, 397-409.
29. Schulz, B. L., Packer, N. H., Oxley, D., Karlsson, N. G., Biochem. J. 2002, 366, 511-520.
30. Prakobphol, A., Xu, F., Hoang, V. M., Larsson, T. et al., J. Biol. Chem. 2000, 275, 39860-39866.
31. Prakobphol, A., Thomsson, K. A., Hansson, G. C., Rosen, S. D. et al., Biochemistry 1998, 37, 4916-4927.
32. Scharfman, A., Delmotte, P., Beau, J., Lamblin, G. et al., Glycoconj. J. 2000, 17, 735-740.
33. Håkansson, K., Cooper, H. J., Hudgins, R. R., Nilsson, C. L., Curr. Organ. Chem. 2003, 7, 1503-1525.