Improving cluster-based missing value estimation of DNA microarray data

Alizadeh, 2000, Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling, Nature, 403, 503, 10.1038/35000501 Bø, 2004, LSimpute: accurate estimation of missing values in microarray data with least squares methods, Nucleic Acids Res., 32, e34, 10.1093/nar/gnh026 Brás, 2006, Dealing with gene expression missing data, IEE Proc. Syst. Biol., 153, 105, 10.1049/ip-syb:20050056 de Brevern, 2004, Influence of microarrays experiments missing values on the stability of gene groups by hierarchical clustering, BMC Bioinform., 5, 114, 10.1186/1471-2105-5-114 Gentleman, 1996, R: a language for data analysis and graphics, J. Comput. Graph. Stat., 5, 299, 10.2307/1390807 Gentleman, 2004, Bioconductor: open software development for computational biology and bioinformatics, Genome Biol., 5, R80, 10.1186/gb-2004-5-10-r80 Jörnsten, 2005, DNA microarray data imputation and significance analysis of differential expression, Bioinformatics, 21, 4155, 10.1093/bioinformatics/bti638 Kerr, 2000, Analysis of variance for gene expression microarray data, J. Comput. Biol., 7, 819, 10.1089/10665270050514954 Kim, 2004, Reuse of imputed data in microarray analysis increases imputation efficiency, BMC Bioinform., 5, 160, 10.1186/1471-2105-5-160 Kim, 2005, Missing value estimation for DNA microarray expression data: local least squares imputation, Bioinformatics, 21, 187, 10.1093/bioinformatics/bth499 Levene, 1960, Robust tests for the equality of variance, 278 Little, 1987 Lockhart, 2000, Genomics, gene expression and DNA arrays, Nature, 405, 827, 10.1038/35015701 Manly, 1998 Nguyen, 2004, Evaluation of missing value estimation for microarray data, J. Data Sci., 2, 347, 10.6339/JDS.2004.02(4).170 Oba, 2003, A Bayesian missing value estimation method for gene expression profile data, Bioinformatics, 19, 2088, 10.1093/bioinformatics/btg287 Ouyang, 2004, Gaussian mixture clustering and imputation of microarray data, Bioinformatics, 20, 917, 10.1093/bioinformatics/bth007 Ross, 2000, Systematic variation in gene expression patterns in human cancer cell lines, Nat. Genet., 24, 227, 10.1038/73432 Rubin, 1976, Inference and missing data, Biometrika, 63, 581, 10.1093/biomet/63.3.581 Schafer, 2002, Missing data: our view of the state of the art, Psychol. Methods, 7, 147, 10.1037/1082-989X.7.2.147 Scheel, 2005, The influence of missing value imputation on detection of differentially expressed genes from microarray data, Bioinformatics, 21, 4272, 10.1093/bioinformatics/bti708 Schena, 1995, Quantitative monitoring of gene expression patterns with a complementary DNA microarray, Science, 270, 467, 10.1126/science.270.5235.467 Schulze, 2001, Navigating gene expression using microarrays—a technology review, Nat. Cell Biol., 3, E190, 10.1038/35087138 Siegel, 1988 Spellman, 1998, Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization, Mol. Biol. Cell, 9, 3273, 10.1091/mbc.9.12.3273 Tibshirani, 2002, Diagnosis of multiple cancer types by shrunken centroids of gene expression, Proc. Natl. Acad. Sci. U. S. A., 99, 6567, 10.1073/pnas.082099299 Troyanskaya, 2001, Missing value estimation methods for DNA microarrays, Bioinformatics, 17, 520, 10.1093/bioinformatics/17.6.520 Tusher, 2001, Significance analysis of microarrays applied to the ionizing radiation response, Proc. Natl. Acad. Sci. U. S. A., 98, 5116, 10.1073/pnas.091062498 Yoshimoto, 2002, Genome-wide analysis of gene expression regulated by the calcineurin/Crz1p signaling pathway in Saccharomyces cerevisiae, J. Biol. Chem., 277, 31079, 10.1074/jbc.M202718200