A semiparametric mixture method for local false discovery rate estimation from multiple studies

DOI10.1214/20-AOAS1341MaRDI QIDQ2044249zbMATH OpenOpenAlexFDO

Authors Seok-Oh Jeong, Dongseok Choi, Woncheol Jang

Publication date 4 August 2021

Published in The Annals of Applied Statistics (Search for Journal in Brave)

Full work available at URL https://projecteuclid.org/euclid.aoas/1600454864

zbMATH Keywords

false discovery ratelog concavemicroarraymixture modelnext generation sequencing data

Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10)

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Cites work

• A stochastic process approach to false discovery control.
• Calibration of values for testing precise null hypotheses
• Clustering with mixtures of log-concave distributions
• Detecting the Presence of Mixing with Multiscale Maximum Likelihood
• Empirical Bayes estimates for large-scale prediction problems
• Empirical Bayes selection of wavelet thresholds
• Estimation of a Two-component Mixture Model with Applications to Multiple Testing
• Inference and modeling with log-concave distributions
• Inference for a two-component mixture of symmetric distributions under log-concavity
• Inference for mixtures of symmetric distributions
• Large-scale inference. Empirical Bayes methods for estimation, testing, and prediction
• Log-concave probability and its applications
• Maximum likelihood estimation of a log-concave density and its distribution function: basic properties and uniform consistency
• Maximum likelihood estimation of a multi-dimensional log-concave density. With discussion and authors' reply
• Maximum likelihood estimation of the mixture of log-concave densities
• Microarrays, empirical Bayes and the two-groups model
• On the Bayesian interpretation of the harmonic mean p -value
• Semiparametric Estimation of a Two‐component Mixture Model where One Component is known
• The Behavior of the P-Value When the Alternative Hypothesis is True
• The harmonic mean p-value for combining dependent tests

Cited in

(4)

• Adaptive local false discovery rate procedures for highly spiky data and their application RNA sequencing data of yeast SET4 deletion mutants
• Maximum likelihood estimation of the log-concave component in a semi-parametric mixture with a standard normal density
• Local false discovery rate estimation with competition-based procedures for variable selection
• Double truncation method for controlling local false discovery rate in case of spiky null

Describes a project that uses

Uses Software

• LogConcDEAD
• EBayesThresh
• locfdr
• limma
• logcondens
• logcondens.mode

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