TY - JOUR AU - Pounds, S. B. PY - 2006 DA - 2006// TI - Estimation and control of multiple testing error rates for microarray studies JO - Brief Bioinforma VL - 7 UR - https://doi.org/10.1093/bib/bbk002 DO - 10.1093/bib/bbk002 ID - Pounds2006 ER - TY - BOOK AU - Hochberg, Y. AU - Tamhane, A. C. PY - 1987 DA - 1987// TI - Multiple Comparison Procedures PB - Wiley-Interscience CY - New York, NY UR - https://doi.org/10.1002/9780470316672 DO - 10.1002/9780470316672 ID - Hochberg1987 ER - TY - JOUR AU - Dohler, S. PY - 2014 DA - 2014// TI - A sufficient criterion for control of some generalized error rates in multiple testing JO - Stat Probab Lett VL - 92 UR - https://doi.org/10.1016/j.spl.2014.05.009 DO - 10.1016/j.spl.2014.05.009 ID - Dohler2014 ER - TY - JOUR AU - Benjamini, Y. AU - Hochberg, Y. PY - 1995 DA - 1995// TI - Controlling the false discovery rate: A practical and powerful approach to multiple testing JO - J R Stat Soc Series B (Methodological) VL - 57 ID - Benjamini1995 ER - TY - JOUR AU - Benjamini, Y. AU - Hochberg, Y. PY - 2000 DA - 2000// TI - On the adaptive control of the false discovery rate in multiple testing with independent statistics JO - J Educ Behav Stat VL - 25 UR - https://doi.org/10.3102/10769986025001060 DO - 10.3102/10769986025001060 ID - Benjamini2000 ER - TY - JOUR AU - Keselman, H. J. AU - Cribbie, R. AU - Holland, B. PY - 2002 DA - 2002// TI - Controlling the rate of type i error over a large set of statistical tests JO - Br J Math Stat Psychol VL - 55 UR - https://doi.org/10.1348/000711002159680 DO - 10.1348/000711002159680 ID - Keselman2002 ER - TY - JOUR AU - Storey, J. D. PY - 2002 DA - 2002// TI - A direct approach to false discovery rates JO - J R Stat Soc Series B (Methodological) VL - 64 UR - https://doi.org/10.1111/1467-9868.00346 DO - 10.1111/1467-9868.00346 ID - Storey2002 ER - TY - JOUR AU - Storey, J. D. PY - 2003 DA - 2003// TI - The positive false discovery rate: a Bayesian interpretation and the q-value JO - Ann Stat VL - 31 UR - https://doi.org/10.1214/aos/1074290335 DO - 10.1214/aos/1074290335 ID - Storey2003 ER - TY - BOOK AU - Khatree, R. AU - Naik, D. PY - 2008 DA - 2008// TI - Computational Methods in Biomedical Research PB - Hall/CRC CY - New York, NY ID - Khatree2008 ER - TY - JOUR AU - Gordon, A. AU - Glazko, G. AU - Qiu, X. AU - Yakovlev, A. PY - 2007 DA - 2007// TI - Control of the mean number of false discoveries, bonferroni and stability of multiple testing JO - Ann Appl Stat VL - 1 UR - https://doi.org/10.1214/07-AOAS102 DO - 10.1214/07-AOAS102 ID - Gordon2007 ER - TY - STD TI - Li D, Xie Z, Le Pape M, Dye T. An evaluation of statistical methods for dna methylation microarray data analysis. BMC Bioinforma. 2015; 16(1):1–20. doi:http://dx.doi.org/10.1186/s12859-015-0641-x. UR - http://dx.doi.org/10.1186/s12859-015-0641-x ID - ref11 ER - TY - STD TI - Cheung VG, Nayak RR, Wang IX, Elwyn S, Cousins SM, Morley M, Spielman RS. Polymorphic Cis- and Trans-regulation of human gene expression. PLoS Biol. 2010; 8(9):1000480. doi:http://dx.doi.org/10.1371/journal.pbio.1000480. UR - http://dx.doi.org/10.1371/journal.pbio.1000480 ID - ref12 ER - TY - STD TI - Frazee AC, Langmead B, Leek JT. Recount: A multi-experiment resource of analysis-ready rna-seq gene count datasets. BMC Bioinformatics. 2011; 12(1):1–5. doi:http://dx.doi.org/10.1186/1471-2105-12-449. UR - http://dx.doi.org/10.1186/1471-2105-12-449 ID - ref13 ER - TY - JOUR AU - Robinson, M. D. AU - Oshlack, A. PY - 2010 DA - 2010// TI - A scaling normalization method for differential expression analysis of rna-seq data JO - Genome Biol VL - 11 UR - https://doi.org/10.1186/gb-2010-11-3-r25 DO - 10.1186/gb-2010-11-3-r25 ID - Robinson2010 ER - TY - JOUR AU - Robinson, M. D. AU - McCatyhy, D. J. AU - Smyth, G. K. PY - 2010 DA - 2010// TI - edger: a bioconductor package for differential expression analysis of digital gene expression data JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btp616 DO - 10.1093/bioinformatics/btp616 ID - Robinson2010 ER - TY - STD TI - Bottomly D, Walter NAR, Hunter JE, Darakjian P, Kawane S, Buck KJ, Searles RP, Mooney M, McWeeney SK, Hitzemann R. Evaluating gene expression in c57bl/6j and dba/2j mouse striatum using rna-seq and microarrays. PLoS ONE. 2011; 6(3):1–8. doi:http://dx.doi.org/10.1371/journal.pone.0017820. UR - http://dx.doi.org/10.1371/journal.pone.0017820 ID - ref16 ER - TY - JOUR AU - Begley, C. G. AU - Ellis, L. M. PY - 2012 DA - 2012// TI - Drug development: Raise standards for preclinical cancer research JO - Nature VL - 483 UR - https://doi.org/10.1038/483531a DO - 10.1038/483531a ID - Begley2012 ER - TY - JOUR AU - Plant, A. L. AU - Locascio, L. E. AU - May, W. E. AU - Gallagher, P. D. PY - 2014 DA - 2014// TI - Improved reproducibility by assuring confidence in measurements in biomedical research JO - Nat Methods VL - 11 UR - https://doi.org/10.1038/nmeth.3076 DO - 10.1038/nmeth.3076 ID - Plant2014 ER - TY - JOUR AU - Begley, C. G. PY - 2013 DA - 2013// TI - Reproducibility: Six red flags for suspect work JO - Nature VL - 497 UR - https://doi.org/10.1038/497433a DO - 10.1038/497433a ID - Begley2013 ER - TY - STD TI - McNutt M. Reproducibility. Science. 2014; 343(6168):229–9. doi:http://dx.doi.org/10.1126/science.1250475. http://science.sciencemag.org/content/343/6168/229.full.pdf. UR - http://science.sciencemag.org/content/343/6168/229.full.pdf ID - ref20 ER - TY - JOUR AU - Stodden, V. PY - 2015 DA - 2015// TI - Reproducing statistical results JO - Annu Rev Stat Appl VL - 2 UR - https://doi.org/10.1146/annurev-statistics-010814-020127 DO - 10.1146/annurev-statistics-010814-020127 ID - Stodden2015 ER -