Reference: | 1.Auer, P. L. and Doerge, R. W. (2011) A Two-stage Poisson Model for Testing RNA-Seq Data, Statistical Applications in Genetics and Molecular Biology, 10, 1–26. 2.Benjamini, Y. and Hochberg, Y. (1995) Controlling the False Discovery Rate: a Practical and Powerful Approach to Multiple Testing, J. Roy. Statist. Soc. Ser. B, 57, 289-300. 3.Hall, J.M., Lee, M.K., Newman, B., Morrow, J.E., Anderson, L.A., Huey, B., King, M.C.(1990) Linkage of Early-Onset Familial Breast Cancer to Chromosome 17q21. Science, 250, 1684–1689. 4.Li, J., Witten, D. M., Johnstone, I. M. and Tibshirani, R. (2012) Normalization, Testing,and False Discovery Rate Estimation for RNA-sequencing Data, Biostatistics, 13,523-538. 5.Marioni, J. C., Mason, C.E., Mane, S. M., Stephens, M. and Gilad, Y. (2008) Rna-seq:an Assessment of Technical Reproducibility and Comparison with Gene Expression Arrays,Genome Res., 18, 1509-1517. 6.Nakashima, E. (1997) Some Methods for Estimation in a Negative-Binomial Model, Ann.Inst. Statist. Math., 49, 101-105. 7.Pao, W., Miller, V., Zakowski, M., Doherty, J., Politi, K., Sarkaria, I., Singh, B., Heelan, R., Rusch, V., Fulton, L., Mardis, E., Kupfer, D., Wilson, R., Kris, M. and Varmus, H. (2004) EGF Receptor Gene mutations are Common in Lung Cancers from Never Smokers and are associated with Sensitivity of Tumors to Gefitinib and Erlotinib, Proceedings of the National Academy of Sciences of the United States of America, 101, 13306–13311. 8.Robinson, M. D., McCarthy, D. J. and Smyth, G. K. (2010) edgeR: a Bioconductor Package for Differential Expression Analysis of Digital Gene Expression Data, Bioinformatics, 26,139-140. 9.Robinson, M. D. and Smyth, G. K. (2007) Moderated Statistical Tests for Assessing Differences in Tag Abundance, Bioinformatics, 23, 2881-2887. 10.Robinson, M. D. and Smyth, G. K. (2008) Small-sample Estimation of Negative Binomial Dispersion, with Applications to SAGE Data, Biostatistics, 9, 321-332. 11.Storey, J. D. (2003) The Positive False Discovery Rate: a Bayesian Interpretation and the q-value, Annals of Statistics, 31, 2013-2035. 12.’t Hoen, P. A. C., Ariyurek, Y., Thygesen, H. H., Vreugdenhil, E., Vossen, R. H., De Menezes, R. X., Boer, J. M., Van Ommen, G. J. and Den Dunnen, J. T. (2008) Deep Sequencing-Based Expression Analysis Shows Major Advances in Robustness, Resolution and Inter-lab Portability over Five Microarray Platforms. Nucleic Acids Research, 36, e141. 13.Wang, Z., Gerstein, M. and Snyder, M. (2009) RNA-Seq: a Revolutionary Tool for Transcriptomics,Nat. Rev. Genet., 10, 57-63. |