Quantitative proteomics using uniform 15N-labeling, MASCOT, and the trans-proteomic pipeline

Proteomics

Volumn 7, Issue 19, 2007, Pages 3462-3469

  Palmblad, Magnus ^a   Bindschedler, Laurence V ^a   Cramer, Rainer ^a  

^a UNIVERSITY OF READING   (United Kingdom)

Author keywords

Arabidopsis; Bioinformatics; Liquid chromatography tandem mass spectrometry; Quantitative analysis

Indexed keywords

AMINO ACID; NITROGEN; NITROGEN 15; PEPTIDE; PROTEIN;

ARABIDOPSIS; ARTICLE; AUTOANALYSIS; AUTOMATION; COMPUTER PROGRAM; DATA ANALYSIS; HIGH THROUGHPUT SCREENING; ISOTOPE LABELING; LIQUID CHROMATOGRAPHY; MASS SPECTROMETER; MASS SPECTROMETRY; NONHUMAN; PEPTIDE ANALYSIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEOMICS; QUANTITATIVE ANALYSIS; STATISTICAL ANALYSIS; TANDEM MASS SPECTROMETRY;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; DATABASES, PROTEIN; MASS SPECTROMETRY; NITROGEN ISOTOPES; PEPTIDES; PROTEOMICS; SOFTWARE;

ARABIDOPSIS; ARABIDOPSIS THALIANA;

EID: 35348939574     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200700180     Document Type: Article

References (29)

1. Old, W. M., Arendt, K. M., Wolf, L. A., Pierce, K. G. et al., Mol. Cell. Proteomics 2005, 4, 1487-1502.
2. Chelius, D., Bondarenko, P. V., J. Proteome Res. 2002, 1, 317-323.
3. Liu, H., Sadygov, R. G., Yates, J. R., III, Anal. Chem. 2004, 76, 4193-4201.
4. Lu, P., Vogel, C., Wang, R., Yao, X., Marcotte, E. M., Nat. Biotechnol. 2007, 25, 117-124.
5. Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F. et al., Nat. Biotechnol. 1999, 17, 994-999.
6. Ong, S. E., Blagoev, B., Kratchmarova, I., Kristensen, D. B. et al., Mol. Cell. Proteomics 2002, 1, 376-386.
7. Ross, P. L., Huang, Y. N., Marchese, J. N., Williamson, B. et al., Mol. Cell. Proteomics 2004, 3, 1154-1169.
8. Ross, P., Dey, S., Pillai, S., Daniels, S. et al., 54th ASMS Conference on Mass Spectrometry, ASMS, Seattle, WA 2006.
9. Engelsberger, W. R., Erban, A., Kopka, J., Schulze, W. X., Plant Methods 2006, 2, 14.
10. Ippel, J. H., Pouvreau, L., Kroef, T., Gruppen, H. et al., Proteomics 2004, 4, 226-234.
11. Andreev, V. P., Li, L., Rejtar, T., Li, Q. et al., J. Proteome Res. 2006, 5, 2039-2045.
12. Aho, A. V., Kernighan, B. W., Weinberger, P. J., The AWK Programming Language, Addison-Wesley, Boston, MA, 1988.
13. Han, D. K., Eng, J., Zhou, H., Aebersold, R., Nat. Biotechnol. 2001, 19, 946-951.
14. Li, X. J., Zhang, H., Ranish, J. A., Aebersold, R., Anal. Chem. 2003, 75, 6648-6657.
15. Keller, A., Nesvizhskii, A. I., Kolker, E., Aebersold, R., Anal. Chem. 2002, 74, 5383-5392.
16. Bindschedler, L. V., Palmblad, M., Cramer, R., Mol. Cell. Proteomics 2007, 55th ASMS Conference on Mass Spectrometry and Allied Topics, Indianapolis, IN 2007, Abstract Th P 116.
17. Li, X. J., Pedrioli, P. G., Eng, J., Martin, D. et al., Anal. Chem. 2004, 76, 3856-3860.
18. Parry, M. A., Andralojc, P. J., Mitchell, R. A., Madgwick, P. J., Keys, A. J., J. Exp. Bot. 2003, 54, 1321-1333.
19. Ndimba, B. K., Chivasa, S., Hamilton, J. M., Simon, W. J., Slabas, A. R., Proteomics 2003, 3, 1047-1059.
20. Ott, P. G., Varga, G. J., Szatmari, A., Bozso, Z. et al., Mol. Plant Microbe Interact. 2006, 19, 161-172.
21. Dixon, D. P., Skipsey, M., Grundy, N. M., Edwards, R., Plant Physiol. 2005, 138, 2233-2244.
22. Edwards, R., Brazier-Hicks, M., Dixon, D. P., Cummins, I., Advances In Botanical Research 2005, Vol. 42, pp. 1-32.
23. Jones, A. M., Thomas, V., Truman, B., Lilley, K. et al., Phytochemistry 2004, 65, 1805-1816.
24. Rentel, M. C., Knight, M. R., Plant Physiol. 2004, 135, 1471-1479.
25. Perez-Bueno, M. L., Rahoutei, J., Sajnani, C., Garcia-Luque, I., Baron, M., Proteomics 2004, 4, 418-425.
26. Nishiyama, Y., Allakhverdiev, S. I., Murata, N., Biochim. Biophys. Acta 2006, 1757, 742-749.
27. Shannon, P., Markiel, A., Ozier, O., Baliga, N. S. et al., Genome Res. 2003, 13, 2498-2504.
28. Jaitly, N., Monroe, M. E., Tolić, N., Littlefield, K. et al., 54th ASMS Conference on Mass Spectrometry, ASMS, Seattle, WA 2006.
29. Jacob, R. J., Cramer, R., J. Proteome Res. 2006, 5, 3429-3432.