| Authors | Year | Title | Journal | Links | Topic |
|---|---|---|---|---|---|
| Jaffe, Storey, Ji, Leek | 2013 | Gene set bagging for estimating replicability of gene set analyses | arXiv:1301.3933 [stat.ME] | [PDF] [Web] | StatGen |
| Marstrand, Storey | 2012 | Identifying and mapping cell-type specific chromatin programming of gene expression | arXiv:1210.3313 [q-bio.QM] | [PDF] [Web] | Genomics |
| Desai, Storey | 2012 | Cross-dimensional inference of dependent high-dimensional data | J Am Stat Assoc, 107: 135-151 | [PDF] [Web] | Statistics |
| Leek, Johnson, Parker, Jaffe, Storey | 2012 | The sva package for removing batch effects and other unwanted variation in high-throughput experiments | Bioinformatics, 28(6): 882-883 | [PDF] [Web] | Software |
| Xiao, ... Storey, ... Davis, Tompkins | 2011 | A genomic storm in critically injured humans | J Exp Med, 208(13): 2581-2590 | [Web] | Genomics |
| Desai*, Tan*, Leek, Maier, Tompkins, Storey | 2011 | Dissecting inflammatory complications in critically injured patients by within-patient gene expression changes: a longitudinal clinical genomics study | PLoS Medicine, 8(9): e1001093 | [PDF] [Web] [Data] | Genomics |
| Kanodia, ... Storey, ... Shvartsman | 2011 | A computational statistics approach for estimating the spatial range of morphogen gradients | Development, 138: 4867-4874 | [PDF] [Web] | StatGen |
| Mak, Storey | 2011 | Interview with Nature Biotechnology: New statistical methods for high-throughput sequencing | Nature Biotech | [PDF] [Web] | Genomics |
| Leek, Storey | 2011 | The joint null criterion for multiple hypothesis tests | Stat Appl Gen and Mol Bio, 10: Art 28. | [PDF] [Web] | Statistics |
| Xu, ... Storey, ... Davis, Xiao | 2011 | Human transcriptome array for high-throughput clinical studies | Proc Natl Acad Sci, 108: 3707-3712 | [PDF] [Web] | Genomics |
| Woo, Leek, Storey | 2011 | A computationally efficient modular optimal discovery procedure | Bioinformatics, 27: 509-515 | [PDF] [Web] | Statistics |
| Gresham, ... Storey, Botstein | 2011 | System-level analysis of genes and functions affecting survival during nutrient starvation in Saccharomyces cerevisiae | Genetics, 187: 299-317 | [PDF] [Web] | Genomics |
| Mecham, Nelson, Storey | 2010 | Supervised normalization of microarrays | Bioinformatics, 26: 1308-1315 | [PDF] [Web] [R] |
StatGen |
| Storey | 2010 | False discovery rates | In International Encyclopedia of Statistical Science | [PDF] [Web] | Statistics |
| Kruglyak, Storey | 2009 | Cause and express | Nature Biotech, 27: 544-545 | [Web] | Genomics |
| Kall, Storey, Noble | 2009 | QVALITY: non-parametric estimation of q-values and posterior error probabilities | Bioinformatics, 25: 964-966 | [Web] | Proteomics |
| Leek, Storey | 2008 | A general framework for multiple testing dependence | Proc Natl Acad Sci, 105: 18718-18723 | [PDF] [Web] [R] |
Statistics |
| Chen, Storey | 2008 | Eigen-R2 for dissecting variation in high-dimensional studies | Bioinformatics, 24: 2260-2262 | [PDF] [Web] [Supp] [R] |
StatGen |
| Kall, Storey, Noble | 2008 | Non-parametric estimation of posterior error probabilities associated with peptides identified by tandem mass spectrometry | Bioinformatics, 24: i42-i48 | [PDF] [Web] [Soft] |
Proteomics |
| Hao, Schadt, Storey | 2008 | Calibrating the performance of SNP arrays for whole genome association studies | PLoS Genetics, 4: e1000109 | [PDF] [Web] | Genomics |
| Biswas, Storey, Akey | 2008 | Mapping gene expression quantitative trait loci by singular value decomposition and independent component analysis | BMC Bioinf, 9: 244 | [PDF] [Web] | Genomics |
| Schadt, Molony, ... , Storey, et al. | 2008 | Mapping the genetic architecture of gene expression in human liver | PLoS Biology, 6: e107 | [PDF] [Web] | Genomics |
| Idaghdour, Storey, Jadallah, Gibson | 2008 | A genome-wide gene expression signature of lifestyle in peripheral blood of Moroccan Amazighs | PLoS Genetics, 4: e1000052 | [PDF] [Web] | Genomics |
| Kall, Storey, MacCoss, Noble | 2008 | Assigning significance to peptides identified by tandem mass spectrometry using decoy databases | J Proteome Res, 7: 29-34 | [PDF] [Web] | Proteomics |
| Kall, Storey, MacCoss, Noble | 2008 | Posterior error probabilities and false discovery rates: two sides of the same coin | J Proteome Res, 7: 40-44 | [PDF] [Web] | Proteomics |
| Chen, Emmert-Streib, Storey | 2007 | Harnessing naturally randomized transcription to infer regulatory relationships among genes | Genome Biology, 8: R219 | [PDF] [Web] [R] |
StatGen |
| Dabney, Storey | 2007 | Optimality driven nearest centroid classification from genomic data | PLoS ONE, 2(10): e1002 | [PDF] [Web] [R] |
StatGen |
| Leek, Storey | 2007 | Capturing heterogeneity in gene expression studies by surrogate variable analysis | PLoS Genetics, 3: e161 | [PDF] [Web] [Supp] [R] |
StatGen |
| Akey, Biswas, Leek, Storey | 2007 | On the design and analysis of expression studies in human populations | Nature Genetics, 39: 807-808 | [PDF] [Web] | Genomics |
| Dabney, Storey | 2007 | Normalization of two-channel microarrays accounting for experimental design and intensity-dependent relationships | Genome Biology, 8: R44 | [PDF] [Web] [R] |
StatGen |
| Storey, ... Akey | 2007 | Gene expression variation within and among human populations | Am J Hum Gen, 80: 502-509 | [PDF] [Web] | Genomics |
| Storey | 2007 | The optimal discovery procedure: A new approach to simultaneous significance testing | J Roy Stat Soc, Ser B, 69: 347-368 | [PDF] [Web] | Statistics |
| Storey, Dai, Leek | 2007 | The optimal discovery procedure for large-scale significance testing, with applications to comparative microarray experiments | Biostatistics, 8: 414-432 | [PDF] [Web] [Supp] [R] |
StatGen |
| Dabney, Storey | 2007 | A new approach to intensity-dependent normalization of two-channel microarrays | Biostatistics, 8: 128-139 | [PDF] [Web] | StatGen |
| Chen, Storey | 2006 | Relaxed significance criteria for linkage analysis | Genetics, 173: 2371-2381 | [PDF] [Web] | StatGen |
| Dabney, Storey | 2006 | A reanalysis of a published Affymetrix GeneChip control dataset | Genome Biology, 7: 401 | [PDF] [Web] | Genomics |
| Leek, Monsen, Dabney, Storey | 2006 | EDGE: Extraction and analysis of differential gene expression | Bioinformatics, 22: 507-508 | [PDF] [R] |
Software |
| Storey, Xiao, Leek, Tompkins, Davis | 2005 | Significance analysis of time course microarray experiments | Proc Natl Acad Sci, 102: 12837-12842 | [PDF] [Web] [R] |
StatGen |
| Storey*, Brem*, Whittle, Kruglyak | 2005 | Genetic interactions between polymorphisms that affect gene expression in yeast | Nature, 436: 701-703 | [PDF] | Genomics |
| Storey, Akey, Kruglyak | 2005 | Multiple locus linkage analysis of genomewide expression in yeast | PLoS Biology, 3(8): 1380-1390 | [PDF] [Web] | StatGen |
| Vaszar, ... Storey, ... Kao | 2004 | Longitudinal transcriptional analysis of developing neointimal vascular occlusion and pulmonary hypertension in rats | Physiological Genomics, 17: 150-156 | [PDF] | Genomics |
| Storey, Taylor, Siegmund | 2004 | Strong control, conservative point estimation, and simultaneous conservative consistency of false discovery rates: A unified approach | J Roy Stat Soc, Ser B, 66: 187-205 | [PDF] [R] |
Statistics |
| Storey | 2003 | The positive false discovery rate: A Bayesian interpretation and the q-value | Ann Stat, 31: 2013-2035 | [PDF] | Statistics |
| Storey, Tibshirani | 2003 | Statistical significance for genome-wide studies | Proc Natl Acad Sci, 100: 9440-9445 | [PDF] [Web] [Supp] [R] |
StatGen |
| Arava, Wang, Storey, Brown, Herschlag | 2003 | Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae | Proc Natl Acad Sci, 100: 3889-3894 | [PDF] [Supp] | Genomics |
| Storey, Tibshirani | 2003 | SAM thresholding and false discovery rates for detecting differential gene expression in DNA microarrays | In The Analysis of Gene Expression Data: Methods and Software | [Web] | StatGen |
| Storey, Tibshirani | 2003 | Statistical methods for detecting differential gene expression | In Functional Genomics: Methods and Protocols | [Web] | StatGen |
| Efron, Storey, Tibshirani | 2002 | Microarrays, empirical Bayes methods, and false discovery rates | Tech Report 2001-217, Dept Stat, Stanford University | [PDF] | Statistics |
| Storey | 2002 | A direct approach to false discovery rates | J Roy Stat Soc, Ser B, 64: 479-498 | [PDF] [Supp] [R] |
Statistics |
| Wang, Liu, Storey, ... Brown | 2002 | Precision and functional specificity in mRNA decay | Proc Natl Acad Sci, 99: 5860-5865 | [PDF] [Supp] | Genomics |
| Clement, ... Storey, ... Langin | 2002 | In vivo regulation of human skeletal muscle gene expression by thyroid hormone | Genome Research, 12: 281-291 | [PDF] | Genomics |
| Efron, Tibshirani, Storey, Tusher | 2001 | Empirical Bayes analysis of a microarray experiment | J Am Stat Assoc, 96: 1151-1160 | [PDF] | StatGen |
| Storey, Tibshirani | 2001 | Estimating false discovery rates under dependence, with applications to DNA microarrays | Tech Report 2001-28, Dept Stat, Stanford Univ | [PDF] | Statistics |
| Storey, Siegmund | 2001 | Approximate p-values for local sequence alignments: numerical studies | J Comp Bio, 8: 549-556 | [PDF] | StatGen |
| Gilbert, Kolesar, Reiter, Storey | 2001 | Function digraphs of quadratic maps modulo p | Fibonacci Quarterly, 39: 32-49 | [PDF] | Maths |