TY - JOUR AU - Schena, M. AU - Shalon, D. AU - Davis, R. W. AU - Brown, P. O. PY - 1995 DA - 1995// TI - Quantitative Monitoring of Gene Expression Patterns with a Complementary DNA Microarray JO - Science VL - 207 UR - https://doi.org/10.1126/science.270.5235.467 DO - 10.1126/science.270.5235.467 ID - Schena1995 ER - TY - JOUR AU - Shendure, J. AU - Ji, H. PY - 2008 DA - 2008// TI - Next-generation DNA sequencing JO - Nat Biotechnol VL - 26 UR - https://doi.org/10.1038/nbt1486 DO - 10.1038/nbt1486 ID - Shendure2008 ER - TY - JOUR AU - Storey, J. D. AU - Tibshirani, R. PY - 2003 DA - 2003// TI - Statistical significance for genome-wide studies JO - Proc Natl Acad Sci USA VL - 100 UR - https://doi.org/10.1073/pnas.1530509100 DO - 10.1073/pnas.1530509100 ID - Storey2003 ER - TY - JOUR AU - Hughes, T. R. PY - 2009 DA - 2009// TI - Validation in genome-scale research JO - J Biol VL - 8 UR - https://doi.org/10.1186/jbiol104 DO - 10.1186/jbiol104 ID - Hughes2009 ER - TY - JOUR AU - Dougherty, E. R. PY - 2007 DA - 2007// TI - Validation of inference procedures for gene regulatory networks JO - Curr Genomics VL - 8 UR - https://doi.org/10.2174/138920207783406505 DO - 10.2174/138920207783406505 ID - Dougherty2007 ER - TY - JOUR AU - Dougherty, E. R. AU - Hua, J. AU - Bittner, M. PY - 2007 DA - 2007// TI - Validation of computational methods in genomics JO - Curr Genomics VL - 8 UR - https://doi.org/10.2174/138920207780076956 DO - 10.2174/138920207780076956 ID - Dougherty2007 ER - TY - JOUR AU - Subramanian, A. AU - Tamayo, P. AU - Mootha, V. K. AU - Mukherjee, S. AU - Ebert, B. L. AU - Gillette, M. A. AU - Paulovich, A. AU - Pomeroy, S. L. AU - Golub, T. R. AU - Lander, E. S. AU - Mesirov, J. P. PY - 2005 DA - 2005// TI - Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles JO - Proc Natl Acad Sci USA VL - 102 UR - https://doi.org/10.1073/pnas.0506580102 DO - 10.1073/pnas.0506580102 ID - Subramanian2005 ER - TY - JOUR AU - Johnson, W. E. AU - Rabinovic, A. AU - Li, C. PY - 2007 DA - 2007// TI - Adjusting batch effects in microarray expression data using Empirical Bayes methods JO - Biostatistics VL - 8 UR - https://doi.org/10.1093/biostatistics/kxj037 DO - 10.1093/biostatistics/kxj037 ID - Johnson2007 ER - TY - JOUR AU - Leek, J. T. AU - Scharpf, R. AU - Corrada-Bravo, H. AU - Simcha, D. AU - Langmead, B. AU - Johnson, W. E. AU - Geman, D. AU - Baggerly, K. AU - Irizarry, I. R. PY - 2010 DA - 2010// TI - Tackling the widespread and critical impact of batch effects in high-throughput data JO - Nat Rev Genet VL - 11 UR - https://doi.org/10.1038/nrg2825 DO - 10.1038/nrg2825 ID - Leek2010 ER - TY - JOUR AU - Gatti, D. M. AU - Barry, W. T. AU - Nobel, A. B. AU - Rusyn, I. AU - Wright, F. A. PY - 2010 DA - 2010// TI - Heading down the wrong pathway: on the influence of correlation within gene sets JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-574 DO - 10.1186/1471-2164-11-574 ID - Gatti2010 ER - TY - JOUR AU - Hunter, P. PY - 2011 DA - 2011// TI - Human intuition in the quantitative age. The role of mathematics in biology is vital, but does it leave room for old-fashioned observation and interpretation? JO - EMBO Rep VL - 12 UR - https://doi.org/10.1038/embor.2011.57 DO - 10.1038/embor.2011.57 ID - Hunter2011 ER - TY - JOUR AU - Cheng, C. PY - 2009 DA - 2009// TI - Internal validation inferences of significant genomic features in genome-wide screening JO - Comput Stat Data Anal VL - 53 UR - https://doi.org/10.1016/j.csda.2008.07.004 DO - 10.1016/j.csda.2008.07.004 ID - Cheng2009 ER - TY - JOUR AU - Swamidass, S. J. AU - Bittker, J. A. AU - Bodycombe, N. E. AU - Ryder, S. P. AU - Clemons, P. A. PY - 2010 DA - 2010// TI - An economic framework to prioritize confirmatory tests after a high-throughput screen JO - J Biomol Screen VL - 15 UR - https://doi.org/10.1177/1087057110372803 DO - 10.1177/1087057110372803 ID - Swamidass2010 ER - TY - JOUR AU - Bland, J. M. AU - Altman, D. G. PY - 1986 DA - 1986// TI - Statistical methods for assessing agreement between two methods of clinical measurement JO - Lancet VL - 1 UR - https://doi.org/10.1016/S0140-6736(86)90837-8 DO - 10.1016/S0140-6736(86)90837-8 ID - Bland1986 ER - TY - JOUR AU - Allison, D. B. AU - Gadbury, G. L. AU - Heo, M. AU - Fernandez, J. R. AU - Lee, C. K. AU - Prolla, T. A. AU - Weindruch, R. PY - 2002 DA - 2002// TI - A mixture model approach for the analysis of microarray gene expression data JO - Computational Statistics & Data Analysis VL - 39 UR - https://doi.org/10.1016/S0167-9473(01)00046-9 DO - 10.1016/S0167-9473(01)00046-9 ID - Allison2002 ER - TY - BOOK AU - Gelman, A. AU - Carlin, J. B. AU - Stern, H. S. AU - Rubin, D. B. PY - 2003 DA - 2003// TI - Bayesian Data Analysis PB - Chapman and Hall CY - Boca Raton, Florida ID - Gelman2003 ER - TY - JOUR AU - Leek, J. T. AU - Storey, J. D. PY - 2007 DA - 2007// TI - Capturing heterogeneity in gene expression studies by surrogate variable analysis JO - PLoS Genetics VL - 3 UR - https://doi.org/10.1371/journal.pgen.0030161 DO - 10.1371/journal.pgen.0030161 ID - Leek2007 ER - TY - JOUR AU - Leek, J. T. AU - Storey, J. D. PY - 2008 DA - 2008// TI - A general framework for multiple testing dependence JO - Proc Nat Acad Sci USA VL - 105 UR - https://doi.org/10.1073/pnas.0808709105 DO - 10.1073/pnas.0808709105 ID - Leek2008 ER - TY - JOUR AU - Owen, A. PY - 2005 DA - 2005// TI - Variance of the number of false discoveries JO - J Roy Stat Soc B VL - 67 UR - https://doi.org/10.1111/j.1467-9868.2005.00509.x DO - 10.1111/j.1467-9868.2005.00509.x ID - Owen2005 ER - TY - BOOK AU - Efron, B. AU - Tibshirani, R. J. PY - 1993 DA - 1993// TI - An Introduction to the Bootstrap PB - Chapman and Hall CY - New York, NY UR - https://doi.org/10.1007/978-1-4899-4541-9 DO - 10.1007/978-1-4899-4541-9 ID - Efron1993 ER - TY - JOUR AU - Carro, M. S. AU - Lim, W. K. AU - Alvarez, M. J. AU - Bollo, R. J. AU - Zhao, X. AU - Snyder, E. Y. AU - Sulman, E. P. AU - Anne, S. L. AU - Doetsch, F. AU - Colman, H. AU - Lasorella, A. AU - Aldape, K. AU - Califano, A. AU - Iavarone, A. PY - 2009 DA - 2009// TI - The transcriptional network for mesenchymal transformation of brain tumours JO - Nature VL - 463 UR - https://doi.org/10.1038/nature08712 DO - 10.1038/nature08712 ID - Carro2009 ER - TY - JOUR AU - Zhang, C. AU - Frias, M. A. AU - Mele, A. AU - Ruggiu, M. AU - Eom, T. AU - Marney, C. B. AU - Wang, H. AU - Licatalosi, D. D. AU - Fak, J. J. AU - Darnell, R. B. PY - 2010 DA - 2010// TI - Integrative Modeling Defines the Nova Splicing-Regulatory Network and Its Combinatorial Controls JO - Science VL - 329 UR - https://doi.org/10.1126/science.1191150 DO - 10.1126/science.1191150 ID - Zhang2010 ER - TY - JOUR AU - Bullard, J. H. AU - Purdom, E. AU - Hansen, K. D. AU - Dudoit, S. PY - 2010 DA - 2010// TI - Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments JO - BMC Bioinformatics VL - 11 UR - https://doi.org/10.1186/1471-2105-11-94 DO - 10.1186/1471-2105-11-94 ID - Bullard2010 ER - TY - JOUR AU - Langmead, B. AU - Hansen, K. AU - Leek, J. PY - 2010 DA - 2010// TI - Cloud-scale RNA-sequencing differential expression analysis with Myrna JO - Genome Biology VL - 11 UR - https://doi.org/10.1186/gb-2010-11-8-r83 DO - 10.1186/gb-2010-11-8-r83 ID - Langmead2010 ER - TY - JOUR AU - Ling, D. AU - Salvaterra, P. M. PY - 2011 DA - 2011// TI - Robust RT-qPCR data normalization: validation and selection of internal reference genes during post-experimental data analysis JO - PLoS ONE VL - 6 UR - https://doi.org/10.1371/journal.pone.0017762 DO - 10.1371/journal.pone.0017762 ID - Ling2011 ER -