Empirical likelihood tests for nonparametric detection of differential expression from RNA-seq data

DOI10.1515/SAGMB-2015-0095zbMATH Open1330.92013OpenAlexW2306095644WikidataQ31031593 ScholiaQ31031593MaRDI QIDQ5962705FDOQ5962705

Authors: Thomas Thorne 

Publication date: 16 February 2016

Published in: Statistical Applications in Genetics and Molecular Biology (Search for Journal in Brave)

Full work available at URL: http://centaur.reading.ac.uk/73955/1/diffExpr.pdf

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zbMATH Keywords

differential expressionRNA-seqtranscriptomics

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) General biostatistics (92B15) Empirical decision procedures; empirical Bayes procedures (62C12)

Cites Work

• Title not available (Why is that?)
• Empirical likelihood
• Empirical likelihood ratio confidence intervals for a single functional
• A penalized version of the empirical likelihood ratio for the population mean
• Empirical likelihood as a goodness-of-fit measure

Cited In (8)

• Nonparametric Testing for DNA Copy Number Induced Differential mRNA Gene Expression
• Empirical Bayes analysis of RNA sequencing experiments with auxiliary information
• A likelihood ratio test for the proportion of non-differentially expressed genes
• HmmSeq: a hidden Markov model for detecting differentially expressed genes from RNA-seq data
• BNP-seq: Bayesian nonparametric differential expression analysis of sequencing count data
• Zero-inflated quantile rank-score based test (ZIQRank) with application to scRNA-seq differential gene expression analysis
• A review of recent advances in empirical likelihood
• Pathway analysis for RNA-seq data using a score-based approach

Uses Software

• R
• Bioconductor
• edgeR
• BaySeq
• DEseq
• KEGG
• EBSeq
• recount
• EmpDiff
• SimSeq
• DESeq2

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