Telescoping bimodal latent Dirichlet allocation to identify expression QTLs across tissues.

ABSTRACT: Expression quantitative trait loci (eQTLs), or single-nucleotide polymorphisms that affect average gene expression levels, provide important insights into context-specific gene regulation. Classic eQTL analyses use one-to-one association tests, which test gene-variant pairs individually and ignore correlations induced by gene regulatory networks and linkage disequilibrium. Probabilistic topic models, such as latent Dirichlet allocation, estimate latent topics for a collection of count observations. Prior multimodal frameworks that bridge genotype and expression data assume matched sample numbers between modalities. However, many data sets have a nested structure where one individual has several associated gene expression samples and a single germline genotype vector. Here, we build a teles

SUBMITTER: Gewirtz AD 

PROVIDER: S-EPMC9387650 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature