Identifying Prognostic SNPs in Clinical Cohorts: Complementing Univariate Analyses by Resampling and Multivariable Modeling
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DOI: 10.1371/journal.pone.0155226
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- van Wieringen, Wessel N. & Kun, David & Hampel, Regina & Boulesteix, Anne-Laure, 2009. "Survival prediction using gene expression data: A review and comparison," Computational Statistics & Data Analysis, Elsevier, vol. 53(5), pages 1590-1603, March.
- Buhlmann P. & Yu B., 2003. "Boosting With the L2 Loss: Regression and Classification," Journal of the American Statistical Association, American Statistical Association, vol. 98, pages 324-339, January.
- Binder Harald & Schumacher Martin, 2008. "Adapting Prediction Error Estimates for Biased Complexity Selection in High-Dimensional Bootstrap Samples," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 7(1), pages 1-28, March.
- W. Sauerbrei & P. Royston, 1999. "Building multivariable prognostic and diagnostic models: transformation of the predictors by using fractional polynomials," Journal of the Royal Statistical Society Series A, Royal Statistical Society, vol. 162(1), pages 71-94.
- Patrick Royston & Gareth Ambler, 1999. "Multivariable fractional polynomials," Stata Technical Bulletin, StataCorp LP, vol. 8(43).
- Gerhard Tutz & Harald Binder, 2006. "Generalized Additive Modeling with Implicit Variable Selection by Likelihood-Based Boosting," Biometrics, The International Biometric Society, vol. 62(4), pages 961-971, December.
- Hui Zou & Trevor Hastie, 2005. "Addendum: Regularization and variable selection via the elastic net," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(5), pages 768-768, November.
- Tutz, Gerhard & Binder, Harald, 2007. "Boosting ridge regression," Computational Statistics & Data Analysis, Elsevier, vol. 51(12), pages 6044-6059, August.
- Binder Harald & Müller Tina & Schwender Holger & Golka Klaus & Steffens Michael & Hengstler Jan G. & Ickstadt Katja & Schumacher Martin, 2012. "Cluster-Localized Sparse Logistic Regression for SNP Data," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 11(4), pages 1-31, August.
- Hui Zou & Trevor Hastie, 2005. "Regularization and variable selection via the elastic net," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(2), pages 301-320, April.
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