Comprehensive proteomics

被引:72
作者
Beck, Martin [2 ]
Claassen, Manfred [1 ,3 ,4 ]
Aebersold, Ruedi [1 ,4 ,5 ]
机构
[1] Swiss Fed Inst Technol, Swiss Fed Inst Technol, Inst Mol Syst Biol, CH-8093 Zurich, Switzerland
[2] European Mol Biol Lab, D-69117 Heidelberg, Germany
[3] Swiss Fed Inst Technol, Swiss Fed Inst Technol, Dept Comp Sci, CH-8092 Zurich, Switzerland
[4] Ctr Syst Physiol & Metab Dis, Zurich, Switzerland
[5] Univ Zurich, Fac Sci, CH-8006 Zurich, Switzerland
关键词
COVERAGE PREDICTION; GLOBAL ANALYSIS; PROTEIN; IDENTIFICATIONS; EXPRESSION;
D O I
10.1016/j.copbio.2010.09.002
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Extensive proteome discovery projects using a variety of mass spectrometric techniques have identified proteins matching to 50-70% of the predicted gene models of various species. Comprehensive proteome coverage is desirable for the unbiased comparison of protein quantities between different biological states and for the meaningful comparison of data from multiple samples. Here we discuss the feasibility of this goal in the light of recent technological developments.
引用
收藏
页码:3 / 8
页数:6
相关论文
共 35 条
[1]   Global signatures of protein and mRNA expression levels [J].
Abreu, Raquel de Sousa ;
Penalva, Luiz O. ;
Marcotte, Edward M. ;
Vogel, Christine .
MOLECULAR BIOSYSTEMS, 2009, 5 (12) :1512-1526
[2]   Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics [J].
Baerenfaller, Katja ;
Grossmann, Jonas ;
Grobei, Monica A. ;
Hull, Roger ;
Hirsch-Hoffmann, Matthias ;
Yalovsky, Shaul ;
Zimmermann, Philip ;
Grossniklaus, Ueli ;
Gruissem, Wilhelm ;
Baginsky, Sacha .
SCIENCE, 2008, 320 (5878) :938-941
[3]   A Proteomic View of an Important Human Pathogen - Towards the Quantification of the Entire Staphylococcus aureus Proteome [J].
Becher, Doerte ;
Hempel, Kristina ;
Sievers, Susanne ;
Zuehlke, Daniela ;
Pane-Farre, Jan ;
Otto, Andreas ;
Fuchs, Stephan ;
Albrecht, Dirk ;
Bernhardt, Joerg ;
Engelmann, Susanne ;
Voelker, Uwe ;
van Dijl, Jan Maarten ;
Hecker, Michael .
PLOS ONE, 2009, 4 (12)
[4]  
Beck M, 2009, NAT METHODS, V6, P817, DOI [10.1038/NMETH.1390, 10.1038/nmeth.1390]
[5]   High-coverage proteome analysis reveals the first insight of protein modification systems in the pathogenic spirochete Leptospira interrogans [J].
Cao, Xing-Jun ;
Dai, Jie ;
Xu, Hao ;
Nie, Song ;
Chang, Xiao ;
Hu, Bao-Yu ;
Sheng, Quan-Hu ;
Wang, Lian-Shui ;
Ning, Zhi-Bin ;
Li, Yi-Xue ;
Guo, Xiao-Kui ;
Zhao, Guo-Ping ;
Zeng, Rong .
CELL RESEARCH, 2010, 20 (02) :197-210
[6]  
Claassen M, 2010, LECT N BIOINFORMAT, V6044, P96, DOI 10.1007/978-3-642-12683-3_7
[7]   Proteome coverage prediction with infinite Markov models [J].
Claassen, Manfred ;
Aebersold, Ruedi ;
Buhmann, Joachim M. .
BIOINFORMATICS, 2009, 25 (12) :I154-I160
[8]   Is proteomics the new genomics? [J].
Cox, Juergen ;
Mann, Matthias .
CELL, 2007, 130 (03) :395-398
[9]   Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast [J].
de Godoy, Lyris M. F. ;
Olsen, Jesper V. ;
Cox, Juergen ;
Nielsen, Michael L. ;
Hubner, Nina C. ;
Froehlich, Florian ;
Walther, Tobias C. ;
Mann, Matthias .
NATURE, 2008, 455 (7217) :1251-U60
[10]   Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes [J].
de Groot, Marco J. L. ;
Daran-Lapujade, Pascale ;
van Breukelen, Bas ;
Knijnenburg, Theo A. ;
de Hulster, Erik A. F. ;
Reinders, Marcel J. T. ;
Pronk, Jack T. ;
Heck, Albert J. R. ;
Slijper, Monique .
MICROBIOLOGY-SGM, 2007, 153 :3864-3878