Approximate P-Values for Local Sequence Alignments: Numerical Studies. - John D. Storey; David Siegmund (J. Comput. Biol., 2001)

EDGE: extraction and analysis of differential gene expression. - Jeffrey T. Leek; Eva Monsen; Alan R. Dabney; John D. Storey (Bioinform., 2006)

Non-parametric estimation of posterior error probabilities associated with peptides identified by tandem mass spectrometry. - Lukas Käll; John D. Storey; William Stafford Noble (ECCB, 2008)

Eigen-R2 for dissecting variation in high-dimensional studies. - Lin S. Chen; John D. Storey (Bioinform., 2008)

Mapping gene expression quantitative trait loci by singular value decomposition and independent component analysis. - Shameek Biswas; John D. Storey; Joshua M. Akey (BMC Bioinform., 2008)

QVALITY: non-parametric estimation of q-values and posterior error probabilities. - Lukas Käll; John D. Storey; William Stafford Noble (Bioinform., 2009)

Supervised normalization of microarrays. - Brigham H. Mecham; Peter S. Nelson; John D. Storey (Bioinform., 2010)

A computationally efficient modular optimal discovery procedure. - Sangsoon Woo; Jeffrey T. Leek; John D. Storey (Bioinform., 2011)

False Discovery Rate. - John D. Storey (International Encyclopedia of Statistical Science, 2011)

The sva package for removing batch effects and other unwanted variation in high-throughput experiments. - Jeffrey T. Leek; W. Evan Johnson; Hilary S. Parker; Andrew E. Jaffe; John D. Storey (Bioinform., 2012)

Gene set bagging for estimating the probability a statistically significant result will replicate. - Andrew E. Jaffe; John D. Storey; Hongkai Ji; Jeffrey T. Leek (BMC Bioinform., 2013)

subSeq: Determining Appropriate Sequencing Depth Through Efficient Read Subsampling. - David G. Robinson; John D. Storey (Bioinform., 2014)

Statistical significance of variables driving systematic variation in high-dimensional data. - Neo Christopher Chung; John D. Storey (Bioinform., 2015)

Beyond the E-Value: Stratified Statistics for Protein Domain Prediction. - Alejandro Ochoa; John D. Storey; Manuel Llinás; Mona Singh 001 (PLoS Comput. Biol., 2015)

Probabilistic models of genetic variation in structured populations applied to global human studies. - Wei Hao; Minsun Song; John D. Storey (Bioinform., 2016)

The optimal discovery procedure for significance analysis of general gene expression studies. - Andrew J. Bass; John D. Storey (Bioinform., 2021)