Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS

被引:139
作者
Nesvizhskii, AI [1 ]
Aebersold, R [1 ]
机构
[1] Inst Syst Biol, Seattle, WA 98103 USA
关键词
D O I
10.1016/S1359-6446(03)02978-7
中图分类号
R9 [药学];
学科分类号
1007 ;
摘要
Tandem mass spectrometry has been used increasingly for high-throughput analysis of complex protein samples. A major challenge lies in the consistent, objective and transparent analysis of the large amounts of data generated by such experiments and in their dissemination and publication. Here, we review currently available computational tools and discuss the need for statistical criteria in the analysis of large proteomics datasets.
引用
收藏
页码:173 / 181
页数:9
相关论文
共 75 条
[51]   A statistical model for identifying proteins by tandem mass spectrometry [J].
Nesvizhskii, AI ;
Keller, A ;
Kolker, E ;
Aebersold, R .
ANALYTICAL CHEMISTRY, 2003, 75 (17) :4646-4658
[52]   Further advances in the development of a data interchange standard for proteomics data [J].
Orchard, S ;
Zhu, WM ;
Julian, RK ;
Hermjakob, H ;
Apweiler, R .
PROTEOMICS, 2003, 3 (10) :2065-2066
[53]   Data analysis - the Achilles heel of proteomics [J].
Patterson, SD .
NATURE BIOTECHNOLOGY, 2003, 21 (03) :221-222
[54]   Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: The yeast proteome [J].
Peng, JM ;
Elias, JE ;
Thoreen, CC ;
Licklider, LJ ;
Gygi, SP .
JOURNAL OF PROTEOME RESEARCH, 2003, 2 (01) :43-50
[55]  
PEREZ RE, 2002, P 50 ASMS C MASS SPE
[56]  
Perkins DN, 1999, ELECTROPHORESIS, V20, P3551, DOI 10.1002/(SICI)1522-2683(19991201)20:18<3551::AID-ELPS3551>3.0.CO
[57]  
2-2
[58]   Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses [J].
Petritis, K ;
Kangas, LJ ;
Ferguson, PL ;
Anderson, GA ;
Pasa-Tolic, L ;
Lipton, MS ;
Auberry, KJ ;
Strittmatter, EF ;
Shen, YF ;
Zhao, R ;
Smith, RD .
ANALYTICAL CHEMISTRY, 2003, 75 (05) :1039-1048
[59]   Efficiency of database search for identification of mutated and modified proteins via mass spectrometry [J].
Pevzner, PA ;
Mulyukov, Z ;
Dancik, V ;
Tang, CL .
GENOME RESEARCH, 2001, 11 (02) :290-299
[60]   What does it mean to identify a protein in proteomics? [J].
Rappsilber, J ;
Mann, M .
TRENDS IN BIOCHEMICAL SCIENCES, 2002, 27 (02) :74-78