Table of Contents
International Journal of Proteomics
Volume 2012 (2012), Article ID 804036, 6 pages
http://dx.doi.org/10.1155/2012/804036
Research Article

Identification of Human Serum Peptides in Fourier Transform Ion Cyclotron Resonance Precision Profiles

1Department of Parasitology, Biomolecular Mass Spectrometry Unit, Leiden University Medical Center (LUMC), Albinusdreef 2, 2300 RC Leiden, The Netherlands
2Department of Surgery, Leiden University Medical Center (LUMC), Albinusdreef 2, 2300 RC Leiden, The Netherlands

Received 29 February 2012; Accepted 21 March 2012

Academic Editor: Qiangwei Xia

Copyright © 2012 Simone Nicolardi et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. R. Aebersold and M. Mann, “Mass spectrometry-based proteomics,” Nature, vol. 422, no. 6928, pp. 198–207, 2003. View at Publisher · View at Google Scholar · View at Scopus
  2. N. L. Anderson and N. G. Anderson, “The human plasma proteome: history, character, and diagnostic prospects.,” Molecular & Cellular Proteomics, vol. 1, no. 11, pp. 845–867, 2002. View at Google Scholar · View at Scopus
  3. T. Ideker, V. Thorsson, J. A. Ranish et al., “Integrated genomic and proteomic analyses of a systematically perturbed metabolic network,” Science, vol. 292, no. 5518, pp. 929–934, 2001. View at Publisher · View at Google Scholar · View at Scopus
  4. T. Nilsson, M. Mann, R. Aebersold, J. R. Yates, A. Bairoch, and J. J. M. Bergeron, “Mass spectrometry in high-throughput proteomics: ready for the big time,” Nature Methods, vol. 7, no. 9, pp. 681–685, 2010. View at Publisher · View at Google Scholar · View at Scopus
  5. R. Frank and R. Hargreaves, “Clinical biomarkers in drug discovery and development,” Nature Reviews Drug Discovery, vol. 2, no. 7, pp. 566–580, 2003. View at Google Scholar · View at Scopus
  6. S. Surinova, R. Schiess, R. Hüttenhain, F. Cerciello, B. Wollscheid, and R. Aebersold, “On the development of plasma protein biomarkers,” Journal of Proteome Research, vol. 10, no. 1, pp. 5–16, 2011. View at Publisher · View at Google Scholar · View at Scopus
  7. D. A. N. Mustafa, P. C. Burgers, L. J. Dekker et al., “Identification of glioma neovascularization-related proteins by using MALDI-FTMS and Nano-LC fractionation to microdissected tumor vessels,” Molecular and Cellular Proteomics, vol. 6, no. 7, pp. 1147–1157, 2007. View at Publisher · View at Google Scholar · View at Scopus
  8. M. Palmblad, Y. E. van der Burgt, E. Mostovenko, H. Dalebout, and A. M. Deelder, “A novel mass spectrometry cluster for high-throughput quantitative proteomics.,” Journal of the American Society for Mass Spectrometry, vol. 21, no. 6, pp. 1002–1011, 2010. View at Google Scholar · View at Scopus
  9. S. Nicolardi, M. Palmblad, and P. J. Hensbergen, “Precision profiling and identification of human serum peptides using Fourier transform ion cyclotron resonance mass spectrometry,” Rapid Communication in Mass Spectrometry, vol. 25, pp. 3457–3463, 2011. View at Google Scholar
  10. A. G. Marshall, C. L. Hendrickson, and G. S. Jackson, “Fourier transform ion cyclotron resonance mass spectrometry: a primer,” Mass Spectrometry Reviews, vol. 17, no. 1, pp. 1–35, 1998. View at Google Scholar · View at Scopus
  11. B. Bogdanov and R. D. Smith, “Proteomics by fticr mass spectrometry: TOP down and bottom up,” Mass Spectrometry Reviews, vol. 24, no. 2, pp. 168–200, 2005. View at Publisher · View at Google Scholar · View at Scopus
  12. R. D. Smith, G. A. Anderson, M. S. Lipton et al., “An accurate mass tag strategy for quantitative and high-throughput proteome measurements,” Proteomics, vol. 2, pp. 513–523, 2002. View at Google Scholar
  13. R. Zubarev and M. Mann, “On the proper use of mass accuracy in proteomics,” Molecular and Cellular Proteomics, vol. 6, no. 3, pp. 377–381, 2007. View at Publisher · View at Google Scholar · View at Scopus
  14. J. E. P. Syka, J. J. Coon, M. J. Schroeder, J. Shabanowitz, and D. F. Hunt, “Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry,” Proceedings of the National Academy of Sciences of the United States of America, vol. 101, no. 26, pp. 9528–9533, 2004. View at Publisher · View at Google Scholar · View at Scopus
  15. C. K. Frese, A. F. M. Altelaar, M. L. Hennrich et al., “Improved peptide identification by targeted fragmentation using CID, HCD and ETD on an LTQ-orbitrap velos,” Journal of Proteome Research, vol. 10, no. 5, pp. 2377–2388, 2011. View at Publisher · View at Google Scholar · View at Scopus
  16. H. Molina, R. Matthiesen, K. Kandasamy, and A. Pandey, “Comprehensive comparison of collision induced dissociation and electron transfer dissociation,” Analytical Chemistry, vol. 80, no. 13, pp. 4825–4835, 2008. View at Publisher · View at Google Scholar · View at Scopus
  17. D. L. Swaney, G. C. McAlister, and J. J. Coon, “Decision tree-driven tandem mass spectrometry for shotgun proteomics,” Nature Methods, vol. 5, no. 11, pp. 959–964, 2008. View at Publisher · View at Google Scholar · View at Scopus
  18. D. A. Kaplan, R. Hartmer, J. P. Speir et al., “Electron transfer dissociation in the hexapole collision cell of a hybrid quadrupole-hexapole Fourier transform ion cyclotron resonance mass spectrometer,” Rapid Communications in Mass Spectrometry, vol. 22, no. 3, pp. 271–278, 2008. View at Publisher · View at Google Scholar · View at Scopus
  19. Y. O. Tsybin, L. Fornelli, C. Stoermer et al., “Structural analysis of intact monoclonal antibodies by electron transfer dissociation mass spectrometry,” Analytical Chemistry, vol. 83, pp. 8919–8927, 2011. View at Google Scholar