geuvadis {baycn}

Genotype and gene expression data from the GEUVADIS project

Description

The GEUVADIS (Genetic European Variation in Disease) project (Lappalainen et al., 2013) measured the gene expression in Lymphoblastoid Cell Lines (LCLs) from a subset of individuals from the 1,000 Genomes Project (Auton et al., 2015), which measured the genotypes of individuals from multiple ethnicities. This data set contains genotype and gene expression data from 373 European individuals. The data are divided into 46 sets which each contain data from an expression quantitative trait locus (eQTL) and its associated genes.

Usage

data(geuvadis)

Format

An object of class "list" containing 46 eQTL-gene sets. Each element of the list is a matrix with the observations down the rows and the eQTL and genes across the columns. The first column in the matrix contains the genotype (eQTL) data and the remaining columns contain the gene expression data.

Source

https://www.ebi.ac.uk/arrayexpress/files/E-GEUV-1/analysis_results/

References

Lappalainen, T., Sammeth, M., Friedländer, M. et al. Transcriptome and genome sequencing uncovers functional variation in humans. Nature 501, 506–511 (2013) doi:10.1038/nature12531

Auton, A., Abecasis, G., Altshuler, D. et al. A global reference for human genetic variation. Nature 526, 68–74 (2015) doi:10.1038/nature15393

Examples

# Load the data.
data(geuvadis)

# Display the first 6 rows of the eQTL-gene set Q8.
head(geuvadis$Q8)