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Mapping of cis-eQTLs for COVID-19-related genes in the SPIROMICS dataset

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LappalainenLab/spiromics-covid19-eqtl

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spiromics-covid19-eqtl

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).

Overview of this repository

  • 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.

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Mapping of cis-eQTLs for COVID-19-related genes in the SPIROMICS dataset

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