The positive false discovery rate: a Bayesian interpretation and the q-value

By John D. Storey. 2003

2,400 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/b3f0a539fd43663f60c28fd0a1afdb95397399c4

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Citations in the corpus

Multiple Hypothesis Testing by Clustering Treatment Effects (2007, methodology): “…dependencies (van der Laan, Dudoit, and Pollard 2004; Storey, Taylor, and Siegmund 2004), and useful methods are available that from a list of p values produce an error rate–controlled short list of rejected null hypotheses (Storey 2003; Benjamini and Yekutieli 2001; Benjamini and Hochberg 1995).”
Selecting between‐sample RNA‐Seq normalization methods from the perspective of their assumptions (2016, methodology): “he FWER [36]. In the two decades since the introduction of the FDR, a number of alternative approaches have been suggested, including related errors like Storey’s positive false discovery rate (pFDR) [42], and adaptive methods for controlling the FDR while attempting to maximize power, such as the o”
Some Results on the Control of the False Discovery Rate under Dependence (2007, methodology): “…to generalize the methods under dependence (Yekutieli & Benjamini, 1999; Benjamini & Yekutieli, 2001; Pollard & van der Laan, 2002; Sarkar, 2002; Storey, 2003, etc.); by verifying procedures developed under independence of test statistics to work under certain dependence conditions, estimation…”
Exceedance Control of the False Discovery Proportion (2006, background): “In addition, we Christopher R. Genovese is Professor (E-mail: genovese@stat.cmu.edu), and Larry Wasserman is Professor (E-mail: larry@stat.cmu.edu), Department of Statistics, Carnegie Mellon University, Pitsburgh, PA 15213.”
Impacts of Neanderthal-introgressed sequences on the landscape of human gene expression (2017, neutral): “These empirical p valueswere then used to control the FDR at 5% using the method of Storey (2003).”
Using false discovery rates for multiple comparisons in ecology and evolution (2011, background): “The q-value of a certain comparison is the minimum pFDR at which that comparison along with all the other comparisons that have smaller P-values can be called significant (Storey 2003; Storey & Tibshirani 2003).”
Control of the mean number of false discoveries, Bonferroni and stability of multiple testing (2007, background): “y rate (FDR) [Benjamini and Hochberg (1995), Yekutieli and Benjamini (1999), Benjamini and Hochberg (2000), Reiner, Yekutieli and Benjamini (2003)] and its local version [Efron (2003)], positive FDR [Storey (2003)], generalized FWER [Victor (1982), Dudoit, van der Laan and Pollard (2004), Korn et al”
The optimal discovery procedure: a new approach to simultaneous significance testing (2007, methodology): “An exact equality exists for large numbers of tests with certain convergence properties (Storey et al., 2004), under Bayesian mixture model assumptions (Storey, 2003) and under alternative definitions of FDR (Benjamini and Hochberg, 1995; Storey, 2003).”
Identifying differentially expressed genes using false discovery rate controlling procedures (2003, methodology): “Efron et al. (2001) and Storey (2001) discuss a Bayesian interpretation of the FDR within the context of microarray data.”
Semi-Supervised Novelty Detection (2010, methodology): “Under the mixture contamination model, it can be checked that pFDR( f ) = mFDR( f ) = PXY(Y = 0| f (X) = 1) (Storey, 2003), hence also equal to one minus the precision for class 1 (as defined earlier in Section 4).”
Statistical significance for genomewide studies (2003, background): “However, working with the original test statistics and null distributions will lead to the same q-value estimates [3].”
An Introduction to Second-Generation p-Values (2019, background): “The FDR was not formalized in the statistical literature until fairly recently (Benjamini and Hochberg 1995; Storey 2002, 2003).”
False Discovery Control for Random Fields (2004, background): “A referee has asked whether asymptotic arguments like those of Storey (2002) and Genovese and Wasserman (2002) can be used in the present setting to find a threshold that controls FDR.”