MCP Tips for better browsing
HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
QUICK SEARCH:   [advanced]


     

Originally published In Press as doi:10.1074/mcp.M300073-MCP200 on December 26, 2003.
This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Supplemental Data
Right arrow All Versions of this Article:
M300073-MCP200v1
3/3/238    most recent
Right arrow Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when eLetters are posted
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow Glossary
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Habermann, B.
Right arrow Articles by Shevchenko, A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Habermann, B.
Right arrow Articles by Shevchenko, A.
Social Bookmarking
Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

Molecular & Cellular Proteomics 3:238-249, 2004.
© 2004 by The American Society for Biochemistry and Molecular Biology, Inc.

Research

The Power and the Limitations of Cross-Species Protein Identification by Mass Spectrometry-driven Sequence Similarity Searches*,S

Bianca Habermann{ddagger},§,¶, Jeffrey Oegema§, Shamil Sunyaev|| and Andrej Shevchenko{ddagger},¶

From the {ddagger} Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstrasse 108, 01307 Dresden, Germany; and || Birgham & Women’s Hospital and Harvard Medical School, 75 Francis Street, Boston, MA 02115

Mass spectrometry-driven BLAST (MS BLAST) is a database search protocol for identifying unknown proteins by sequence similarity to homologous proteins available in a database. MS BLAST utilizes redundant, degenerate, and partially inaccurate peptide sequence data obtained by de novo interpretation of tandem mass spectra and has become a powerful tool in functional proteomic research. Using computational modeling, we evaluated the potential of MS BLAST for proteome-wide identification of unknown proteins. We determined how the success rate of protein identification depends on the full-length sequence identity between the queried protein and its closest homologue in a database. We also estimated phylogenetic distances between organisms under study and related reference organisms with completely sequenced genomes that allow substantial coverage of unknown proteomes.

To whom correspondence should be addressed: Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstrasse 108, 01307 Dresden, Germany. E-mail: habermann{at}mpi-cbg.de or shevchenko{at}mpi-cbg.de


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


This article has been cited by other articles:


Home page
 Brief BioinformHome page
B.-J. M. Webb-Robertson and W. R. Cannon
Current trends in computational inference from mass spectrometry-based proteomics
Brief Bioinform, September 1, 2007; 8(5): 304 - 317.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
A. Katz, P. Waridel, A. Shevchenko, and U. Pick
Salt-induced Changes in the Plasma Membrane Proteome of the Halotolerant Alga Dunaliella salina as Revealed by Blue Native Gel Electrophoresis and Nano-LC-MS/MS Analysis
Mol. Cell. Proteomics, September 1, 2007; 6(9): 1459 - 1472.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
G. Qin, S. Tian, Z. Chan, and B. Li
Crucial Role of Antioxidant Proteins and Hydrolytic Enzymes in Pathogenicity of Penicillium expansum: Analysis Based on Proteomics Approach
Mol. Cell. Proteomics, March 1, 2007; 6(3): 425 - 438.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
Q. Luo, E. Nieves, J. Kzhyshkowska, and R. H. Angeletti
Endogenous Transforming Growth Factor-{beta} Receptor-mediated Smad Signaling Complexes Analyzed by Mass Spectrometry
Mol. Cell. Proteomics, July 1, 2006; 5(7): 1245 - 1260.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
Q. C. Ru, L. A. Zhu, J. Silberman, and C. D. Shriver
Label-free Semiquantitative Peptide Feature Profiling of Human Breast Cancer and Breast Disease Sera via Two-dimensional Liquid Chromatography-Mass Spectrometry
Mol. Cell. Proteomics, June 1, 2006; 5(6): 1095 - 1104.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
A. J. Liska, A. Shevchenko, U. Pick, and A. Katz
Enhanced Photosynthesis and Redox Energy Production Contribute to Salinity Tolerance in Dunaliella as Revealed by Homology-Based Proteomics
Plant Physiology, September 1, 2004; 136(1): 2806 - 2817.
[Abstract] [Full Text] [PDF]


HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
 All ASBMB Journals   Journal of Biological Chemistry 
 Journal of Lipid Research   ASBMB Today 
Copyright © 2004 by the American Society for Biochemistry and Molecular Biology.