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An estimate of the science-wise false discovery rate and application to the top medical literature.
Jager LR, Leek JT. Jager LR, et al. Among authors: leek jt. Biostatistics. 2014 Jan;15(1):1-12. doi: 10.1093/biostatistics/kxt007. Epub 2013 Sep 25. Biostatistics. 2014. PMID: 24068246
Differential expression analysis of RNA-seq data at single-base resolution.
Frazee AC, Sabunciyan S, Hansen KD, Irizarry RA, Leek JT. Frazee AC, et al. Among authors: leek jt. Biostatistics. 2014 Jul;15(3):413-26. doi: 10.1093/biostatistics/kxt053. Epub 2014 Jan 6. Biostatistics. 2014. PMID: 24398039 Free PMC article.
A computationally efficient modular optimal discovery procedure.
Woo S, Leek JT, Storey JD. Woo S, et al. Among authors: leek jt. Bioinformatics. 2011 Feb 15;27(4):509-15. doi: 10.1093/bioinformatics/btq701. Epub 2010 Dec 24. Bioinformatics. 2011. PMID: 21186247 Free PMC article.
The optimal discovery procedure for large-scale significance testing, with applications to comparative microarray experiments.
Storey JD, Dai JY, Leek JT. Storey JD, et al. Among authors: leek jt. Biostatistics. 2007 Apr;8(2):414-32. doi: 10.1093/biostatistics/kxl019. Epub 2006 Aug 23. Biostatistics. 2007. PMID: 16928955
The tspair package for finding top scoring pair classifiers in R.
Leek JT. Leek JT. Bioinformatics. 2009 May 1;25(9):1203-4. doi: 10.1093/bioinformatics/btp126. Epub 2009 Mar 10. Bioinformatics. 2009. PMID: 19276151 Free PMC article.
Significance analysis and statistical dissection of variably methylated regions.
Jaffe AE, Feinberg AP, Irizarry RA, Leek JT. Jaffe AE, et al. Among authors: leek jt. Biostatistics. 2012 Jan;13(1):166-78. doi: 10.1093/biostatistics/kxr013. Epub 2011 Jun 17. Biostatistics. 2012. PMID: 21685414 Free PMC article.
Preserving biological heterogeneity with a permuted surrogate variable analysis for genomics batch correction.
Parker HS, Leek JT, Favorov AV, Considine M, Xia X, Chavan S, Chung CH, Fertig EJ. Parker HS, et al. Among authors: leek jt. Bioinformatics. 2014 Oct;30(19):2757-63. doi: 10.1093/bioinformatics/btu375. Epub 2014 Jun 6. Bioinformatics. 2014. PMID: 24907368 Free PMC article.
A general framework for multiple testing dependence.
Leek JT, Storey JD. Leek JT, et al. Proc Natl Acad Sci U S A. 2008 Dec 2;105(48):18718-23. doi: 10.1073/pnas.0808709105. Epub 2008 Nov 24. Proc Natl Acad Sci U S A. 2008. PMID: 19033188 Free PMC article.
Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce.
Nellore A, Wilks C, Hansen KD, Leek JT, Langmead B. Nellore A, et al. Among authors: leek jt. Bioinformatics. 2016 Aug 15;32(16):2551-3. doi: 10.1093/bioinformatics/btw177. Epub 2016 Apr 21. Bioinformatics. 2016. PMID: 27153614 Free PMC article.
Capturing heterogeneity in gene expression studies by surrogate variable analysis.
Leek JT, Storey JD. Leek JT, et al. PLoS Genet. 2007 Sep;3(9):1724-35. doi: 10.1371/journal.pgen.0030161. Epub 2007 Aug 1. PLoS Genet. 2007. PMID: 17907809 Free PMC article.
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