EDGE: Extraction and analysis of differential gene expression

Bioinformatics

Volumn 22, Issue 4, 2006, Pages 507-508

  Leek, Jeffrey T ^a   Monsen, Eva ^a   Dabney, Alan R ^a   Storey, John D ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRCA1 PROTEIN; BRCA2 PROTEIN;

ACCESS TO INFORMATION; ARTICLE; BIOINFORMATICS; BREAST TUMOR; COMPUTER INTERFACE; COMPUTER PROGRAM; DNA MICROARRAY; GENE EXPRESSION; GENE IDENTIFICATION; HUMAN; INFORMATION PROCESSING; INTERMETHOD COMPARISON; PRIORITY JOURNAL; REPRODUCIBILITY; STATISTICAL ANALYSIS;

EID: 32544433476     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btk005     Document Type: Article

References (13)

1. Alter,O. et al. (2000) Singular value decomposition for genome-wide expression data processing and modeling. Proc. Natl Acad. Sci., 97, 10101-10106.
2. Cui,X. et al. (2005) Improved statistical tests for differential gene expression by shrinking variance components estimates. Biostatistics, 6, 59-75.
3. Dudoit,S. et al. (2002) Comparison of discrimination methods for the classification of tumors using gene expression data. J. Am. Stat. Assoc., 97, 77-87.
4. Efron,B. et al. (2001) Empirical Bayes analysis of a microarray experiment. J. Am. Stat. Assoc., 96, 1151-1160.
5. Eisen,M. B. et al. (1998) Cluster analysis and display of genome-wide expression patterns. Proc. Natl Acad. Sci., 95, 14863-14868.
6. Hedenfalk,I. et al. (2002) Gene-expression profiles in hereditary breast cancer. N. Engl. J. Med., 344, 539-548.
7. Lonnstedt,I. and Speed,T. (2002) Replicated microarray data. Stat. Sinica, 12, 31-46.
8. Development Core Team (2005) R: A language and environment for statistical computing. R Foundation for Statistical Computing. Vienna, Austria.
9. Storey,J.D. (2005) The optimal discovery procedure: A new approach to simultaneous significance testing. UW Biostatistics Working Paper Series Working Paper, 259.
10. Storey,J.D. and Tibshirani,R. (2003) Statistical significance for genome-wide studies. Proc. Natl Acad. Sci., 100, 9440-9445.
11. Storey,J.D., Dai,J.Y. and Leek,J.T. (2005a) The Optimal Discovery Procedure for Large-Scale Significance Testing, with Applications to Comparative Microarray Experiments. UW Biostatistics Working Paper Series. Working Paper 260.
12. Storey,J.D. et al. (2005b) Significance analysis of time course microarray experiments. Proc. Natl Acad. Sci., 36, 12837-12842.
13. Troyanskaya,O. et al. (2001) Missing value estimation methods for DNA microarrays. Bioinformatics, 17, 520-525.