HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS		QUICK SEARCH:   [advanced] Author: Keyword(s): Year:  Vol:  Page:

This Article Full Text Full Text (PDF) Supplemental Data All Versions of this Article: M700029-MCP200v1 6/9/1589    most recent Submit a response Alert me when this article is cited Alert me when eLetters are posted Alert me if a correction is posted Citation Map Services Email this article to a friend Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Request Permissions Glossary Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Picotti, P. Articles by Domon, B. Search for Related Content PubMed PubMed Citation Articles by Picotti, P. Articles by Domon, B. Social Bookmarking                      What's this?

Molecular & Cellular Proteomics 6:1589-1598, 2007.
© 2007 by The American Society for Biochemistry and Molecular Biology, Inc.

---

Research

The Implications of Proteolytic Background for Shotgun Proteomics^*,S

Paola Picotti, Ruedi Aebersold^,,¶ and Bruno Domon^,||

From the Institute of Molecular Systems Biology, ETH Zürich, CH-8093 Zürich, Switzerland, Faculty of Sciences, University of Zürich, CH-8006 Zürich, Switzerland, and ^¶ Institute for Molecular Systems Biology, Seattle, Washington 98103

The analysis by liquid chromatography coupled to tandem mass spectrometry of complex peptide mixtures, generated by proteolysis of protein samples, is the main proteomics method used today. The approach is based on the assumption that each protein present in a sample reproducibly and predictably generates a relatively small number of peptides that can be identified by mass spectrometry. In this study this assumption was examined by a targeted peptide sequencing strategy using inclusion lists to trigger peptide fragmentation attempts. It was found that the number of peptides observed from a single protein is at least one order of magnitude greater than previously assumed. This unexpected complexity of proteomics samples implies substantial technical challenges, explains some perplexing results in the proteomics literature, and prompts the need for developing alternative experimental strategies for the rapid and comprehensive analysis of proteomes.

CiteULike    Complore    Connotea    Del.icio.us    Digg    Reddit    Technorati    What's this?

This article has been cited by other articles:

				J. D. Jaffe, H. Keshishian, B. Chang, T. A. Addona, M. A. Gillette, and S. A. Carr Accurate Inclusion Mass Screening: A Bridge from Unbiased Discovery to Targeted Assay Development for Biomarker Verification Mol. Cell. Proteomics, October 1, 2008; 7(10): 1952 - 1962. [Abstract] [Full Text] [PDF]

				U. Kruse, M. Bantscheff, G. Drewes, and C. Hopf Chemical and Pathway Proteomics: Powerful Tools for Oncology Drug Discovery and Personalized Health Care Mol. Cell. Proteomics, October 1, 2008; 7(10): 1887 - 1901. [Abstract] [Full Text] [PDF]

				J. A. Galan, M. Guo, E. E. Sanchez, E. Cantu, A. Rodriguez-Acosta, J. C. Perez, and W. A. Tao Quantitative Analysis of Snake Venoms Using Soluble Polymer-based Isotope Labeling Mol. Cell. Proteomics, April 1, 2008; 7(4): 785 - 799. [Abstract] [Full Text] [PDF]

				P. J. Ulintz, B. Bodenmiller, P. C. Andrews, R. Aebersold, and A. I. Nesvizhskii Investigating MS2/MS3 Matching Statistics: A Model For Coupling Consecutive Stage Mass Spectrometry Data For Increased Peptide Identification Confidence Mol. Cell. Proteomics, January 1, 2008; 7(1): 71 - 87. [Abstract] [Full Text] [PDF]