Averaged gene expressions for regression

Biostatistics

Volumn 8, Issue 2, 2007, Pages 212-227

  Park, Mee Young ^a   Hastie, Trevor ^b   Tibshirani, Robert ^b  

^a GOOGLE INC   (United States)

^b STANFORD UNIVERSITY   (United States)

Author keywords

Averaging; Hierarchical clustering; Lasso; Variance reduction

Indexed keywords

ARTICLE; BREAST TUMOR; CLUSTER ANALYSIS; COMPARATIVE STUDY; COMPUTER SIMULATION; DNA MICROARRAY; FEMALE; GENE EXPRESSION PROFILING; GENETICS; HUMAN; METHODOLOGY; REGRESSION ANALYSIS; STATISTICAL MODEL;

BREAST NEOPLASMS; CLUSTER ANALYSIS; COMPUTER SIMULATION; FEMALE; GENE EXPRESSION PROFILING; HUMANS; MODELS, STATISTICAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REGRESSION ANALYSIS;

EID: 34147177060     PISSN: 14654644     EISSN: 14684357     Source Type: Journal    
DOI: 10.1093/biostatistics/kxl002     Document Type: Article

References (16)

1. ASHBURNER, M., BALL, C., BLAKE, J., BOTSTEIN, D., BUTLER, H., CHERRY, J., DAVIS, A., DOLINSKI, K., DWIGHT, S., EPPIG, J. and others (2000). Gene ontology: tool for the unification of biology. The gene ontology consortium. Nature Genetics 25, 25-9.
2. BAIR, E., HASTIE, T., PAUL, D. AND TIBSHIRANI, R. (2004). Prediction by supervised principal components. Journal of the American Statistical Association 101, 119-137.
3. BOYLE, E., WENG, S., GOLLUB, J., JIN, H., BOTSTEIN, D., CHERRY, J. AND SHERLOCK, G. (2004). Go::termfinder-open source software for accessing gene ontology information and finding significantly enriched gene ontology terms associated with a list of genes. Bioinformatics 20, 3710-5.
4. EFRON, B., HASTIE, T., JOHNSTONE, I. AND TIBSHIRANI, R. (2004). Least angle regression. Annals of Statistics 32, 407-99.
5. EISEN, M., SPELLMAN, P., BROWN, P. AND BOTSTEIN, D. (1998). Cluster analysis and display of genomewide expression patterns. Proceedings of the National. Academy of Sciences of the United States of America 95, 14863-8.
6. GO-CONSORTIUM (2004). The gene ontology (go) database and informatics resource. Nucleic Acids Research 32, 235-61.
7. HASTIE, T., TIBSHIRANI, R., BOTSTEIN, D. AND BROWN, P. (2001a). Supervised harvesting of expression trees. Genome Biology 2, 1-12.
8. HASTIE, T., TIBSHIRANI, R. AND FRIEDMAN, J. (2001b). Elements of Statistical Learning; Data Mining, Inference, and Prediction. New York: Springer.
9. HOERL, A. E. AND KENNARD, R. (1970). Ridge regression: biased estimation for nonorthogonal problems. Technometrics 12, 55-67.
10. 1 Regularization path algorithm for generalized linear models. Technical Report. Stanford University, Stanford.
11. TIBSHIRANI, R. (1996). Regression shrinkage and selection via the lasso. Journal of the Royal Statistical Society, Series B 58, 267-88.
12. TIBSHIRANI, R. (1997). The lasso method for variable selection in the Cox model. Statistics in Medicine 16, 385-95.
13. VAN'T VEER, L., DAI, H., VAN DE VIJVER, M., HE, Y., HART, A., MAO, M., PETERSE, H., VAN DER KOOY, K., MARTON, M., WITTEVEEN, A. and others (2002). Gene expression profiling predicts clinical outcomes of breast cancer. Nature 415, 530-6.
14. VERWEIJ, P. AND VAN HOUWELINGEN, H. (1993). Cross-validation in survival analysis. Statistics in Medicine 12, 2305-14.
15. YU, X. (2005). Regression methods for microarray data, [PhD. Thesis]. Stanford University, Stanford, pp 23-39.
16. ZOU, H. AND HASTIE, T. (2005). Regularization and variable selection via the elastic net. Journal of the Royal Statistical Society, Series B 67, 301-20.