CCmed: cross-condition mediation analysis for identifying replicable trans-associations mediated by cis-gene expression.

ABSTRACT:

Motivation

Trans-acting expression quantitative trait loci (eQTLs) collectively explain a substantial proportion of expression variation, yet are challenging to detect and replicate since their effects are often individually weak. A large proportion of genetic effects on distal genes are mediated through cis-gene expression. Cis-association (between SNP and cis-gene) and gene-gene correlation conditional on SNP genotype could establish trans-association (between SNP and trans-gene). Both cis-association and gene-gene conditional correlation have effects shared across relevant tissues and conditions, and trans-associations mediated by cis-gene expression also have effects shared across relevant conditions.

Results

We proposed a Cross-Condition Mediation analysis method (CCmed

SUBMITTER: Yang F 

PROVIDER: S-EPMC8428610 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature