ArticleBiostatistics (Oxford, England)2018
An empirical Bayes approach for multiple tissue eQTL analysis.
Article in Biostatistics (Oxford, England), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers, 2 of them syntheses that pooled it.
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Who cites it
33 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Trans-ancestry, Bayesian meta-analysis discovers 20 novel risk loci for inflammatory bowel disease in an African American, East Asian and European cohort.Human molecular genetics · 2023Pooled it
- A resource for integrated genomic analysis of the human liver.Scientific reports · 2022Pooled it
- Beyond the Standard GWAS-A Guide for Plant Biologists.Plant & cell physiology · 2025Review
- Control of false discoveries in grouped hypothesis testing for eQTL data.BMC bioinformatics · 2024Article
- Integrative cross-omics and cross-context analysis elucidates molecular links underlying genetic effects on complex traits.Nature communications · 2024Article
- Expression quantitative trait loci analysis in rheumatoid arthritis identifies tissue specific variants associated with severity and outcome.Annals of the rheumatic diseases · 2024Article
- Distributed eQTL analysis with auxiliary information.Journal of statistical planning and inference · 2024Article
- Leveraging a surrogate outcome to improve inference on a partially missing target outcome.Biometrics · 2023Article
- CellRegMap: a statistical framework for mapping context-specific regulatory variants using scRNA-seq.Molecular systems biology · 2022Article
- Multivariate phenotype analysis enables genome-wide inference of mammalian gene function.PLoS biology · 2022Article
- Review
- Hypotheses on a tree: new error rates and testing strategies.Biometrika · 2021Article
- A COVARIANCE-ENHANCED APPROACH TO MULTI-TISSUE JOINT EQTL MAPPING WITH APPLICATION TO TRANSCRIPTOME-WIDE ASSOCIATION STUDIES.The annals of applied statistics · 2021Article
- Where Are the Disease-Associated eQTLs?Trends in genetics : TIG · 2021Review
- An enhanced machine learning tool for cis-eQTL mapping with regularization and confounder adjustments.Genetic epidemiology · 2020Article
- PTWAS: investigating tissue-relevant causal molecular mechanisms of complex traits using probabilistic TWAS analysis.Genome biology · 2020Article
- Stochastic imputation for integrated transcriptome association analysis of a longitudinally measured trait.Statistical methods in medical research · 2020Article
- Expression Quantitative Trait Loci Analysis in Multiple Tissues.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Development of a tissue augmented Bayesian model for expression quantitative trait loci analysis.Mathematical biosciences and engineering : MBE · 2019Article
- Characterizing the Relation Between Expression QTLs and Complex Traits: Exploring the Role of Tissue Specificity.Behavior genetics · 2018Article
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5 authors.
Funding
Abstract
Expression quantitative trait locus (eQTL) analyses identify genetic markers associated with the expression of a gene. Most up-to-date eQTL studies consider the connection between genetic variation and expression in a single tissue. Multi-tissue analyses have the potential to improve findings in a single tissue, and elucidate the genotypic basis of differences between tissues. In this article, we develop a hierarchical Bayesian model (MT-eQTL) for multi-tissue eQTL analysis. MT-eQTL explicitly captures patterns of variation in the presence or absence of eQTL, as well as the heterogeneity of effect sizes across tissues. We devise an efficient Expectation-Maximization (EM) algorithm for model fitting. Inferences concerning eQTL detection and the configuration of eQTL across tissues are derived from the adaptive thresholding of local false discovery rates, and maximum a posteriori estimation, respectively. We also provide theoretical justification of the adaptive procedure. We investigate the MT-eQTL model through an extensive analysis of a 9-tissue data set from the GTEx initiative.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.