Mapping of cis-eQTLs for COVID-19-related genes in the SPIROMICS dataset
This repository contains code to conduct eQTL mapping in bronchial epithelium in the SPIROMICS cohort as presented in the article "Genetic and non-genetic factors affecting the expression of COVID-19-relevant genes in the large airway epithelium" (Kasela et al., 2021, Genome Med, see the preprint in medRxiv).
- genotype - scripts to process genotype data for eQTL mapping in SPIROMICS
- expression - scripts to process gene expression data and calculate PEER factors for eQTL mapping
- candidate_genes - selection of COVID-19 candidate genes
- eqtl - scripts to perform eQTL mapping and downstream analyses
Full eQTL summary statistics for the 496 COVID-19-related genes can be downloaded from here.