Differential recovery of peptides from sample tubes and the reproducibility of quantitative proteomic data

Journal of Proteome Research

Volumn 6, Issue 11, 2007, Pages 4511-4516

  Bark, Steven J ^a   Hook, Vivian ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

LC MS; Nonspecific adsorption; Peptides; Proteomics; Quantitation; Recovery; Reproducibility

Indexed keywords

BOVINE SERUM ALBUMIN; TRYPSIN;

ADSORPTION; ARTICLE; ION TRAP MASS SPECTROMETRY; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEOMICS; QUANTITATIVE ANALYSIS; REPRODUCIBILITY;

ADSORPTION; ANIMALS; CATTLE; CHROMATOGRAPHY, LIQUID; DATABASES, PROTEIN; MASS SPECTROMETRY; PEPTIDES; PROTEINS; PROTEOME; PROTEOMICS; REPRODUCIBILITY OF RESULTS; SERUM ALBUMIN; TRYPSIN;

EID: 36349018372     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr070294o     Document Type: Article

References (16)

1. van Midwoud, P. M.; Rieux, L.; Bischoff, R.; Verpoorte, E.; Niederlander, H. A. G. Improvement of Recovery and Repeatability in Liquid Chromatography-Mass Spectrometry Analysis of Peptides. J. Proteome Res. 2007, 6, 781-791.
2. Hyenstrand, P.; Metcalf, J. S.; Beattie, K. A.; Codd, G. A. Effects of adsorption to plastics and solvent conditions in the analysis of the cyanobacterial toxin microcystin-LR by high performance liquid chromatography. Toxicon 2001, 39, 589.
3. Law, S. L.; Shih, C. L. Adsorption of calcitonin to glass. Drug Dev. Ind. Pharm. 1999, 25, 253.
4. Bauer, H. H.; Muller, M.; Goette, J.; Merkle, H. P.; Fringeli, U. P. Interfacial adsorption and aggregation associated changes in secondary structure of human calcitonin monitored by ATR-FTIR spectroscopy. Biochem. 1994, 33, 12276.
5. Grohganz, H.; Rischer, M.; Brandl, M. Adsorption of decapeptide Cetrorelix depends both on the composition of the dissolution medium and the type of solid surface. Eur. J. Pharm. Sci. 2004, 21, 191.
6. Fu, Q.; Garnham, C. P.; Elliott, S. T.; Bovenkamp, D. E.; Van Eyk, J. E. A robust, streamlined and reproducible method for proteomic analysis of serum by delimpidation, albumin and IgG depletion and two-dimensional gel electrophoresis. Proteomics 2005, 5, 2656-2664.
7. 3 for the determination of enkephalins in microdialysis samples from the striatum of anesthetized and freely-moving rats. J. Mass Spectrom. 2005, 40, 146-153.
8. Yuan, X.; Desiderio, D. M. Human cerebrospinal fluid peptidomics. J. Mass Spectrom. 2005, 40, 176-181.
9. Sinnaeve, B. A.; Storme, M. L.; Van Bocxlaer, J. F.; Capillary liquid chromatography and tandem mass spectrometry for the quantification of enkephalins in cerebrospinal fluid. J. Sep. Sci. 2005, 28, 1779-1784.
10. Wu, C. C.; MacCoss, M. J.; Howell, K.; Matthews, D. E.; Yates, J. R., III Metabolic Labeling of Mammalian Organisms with Stable Isotopes for Quantitative Proteomic Analysis. Anal. Chem. 2004, 76, 4951-4959.
11. Liu, H.; Sadygov, R. G.; Yates, J. R., III A Model for Random Sampling and Estimation of Relative Protein Abundance in Shotgun Proteomics. Anal. Chem. 2004, 76, 4193-4201.
12. Wang, H.; Qian, W.-J.; Chin, M. H.; Petyuk, V. A.; Barry, R. C.; Liu, T.; Gritsenko, M. A.; Mottaz, H. M.; Moore, R. J.; Camp, D. G., II; Khan, A.; H.; Smith, D. J.; Smith, R. D. Characterization of the Mouse Brain Proteome Using Global Proteomic Analysis Complemented with Cysteinyl-Peptide Enrichment. J. Proteome Res. 2006, 5, 361-369.
13. Che, F-Y.; Fricker, L. D. Quantiative peptidomics of mouse pituitary: comparison of different stable isotopic tags. J. Mass Spectrom. 2005, 40, 238-249.
14. Gerber, S. A.; Rush, J.; Stemman, O.; Kirschner, M. W.; Gygi, S. P. Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. Proc. Natl. Acad. Sci. 2003, 100 6940-6945.
15. Oda, Y.; Huang, K.; Cross, F. R.; Cowburn, D.; Chait, B. T. Accurate quantitation of protein expression and site-specific phosphorylation. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 6591-6596.
16. Zybailov, B.; Mosley, A. L.; Sardiu, M. E.; Coleman, M. K.; Florens, L.; Washburn, M. P. Statistical Analysis of Membrane Proteome Expression Changes in Saccharomyces cerevisiae. J. Proteome Res. 2006, 5, 2339-2347.