| gtex {flashier} | R Documentation |
GTEx data
Description
Derived from data made available by the Genotype Tissue
Expression (GTEx) project (Lonsdale et al. 2013),
which provides z-scores for assessing the significance of effects of
genetic variants (single nucleotide polymorphisms, or SNPs) on gene
expression across 44 human tissues. To reduce the data to a more manageable
size, Urbut et al. (2019) chose the "top" SNP for
each gene — that is, the SNP associated with the largest (absolute)
z-score over all 44 tissues. This yields a 16,069 \times 44 matrix
of z-scores, with rows corresponding to SNP-gene pairs and columns
corresponding to tissues. The dataset included here
is further subsampled down to 1000 rows.
Format
gtex is a matrix with 1000 rows and 44 columns, with rows
corresponding to SNP-gene pairs and columns corresponding to tissues.
Source
<https://github.com/stephenslab/gtexresults/blob/master/data/MatrixEQTLSumStats.Portable.Z.rds>
References
Lonsdale et al. (2013). "The Genotype-Tissue Expression (GTEx) project." Nature Genetics 45(6), 580–585.
Urbut, Wang, Carbonetto, and Stephens (2019). "Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions." Nature Genetics 51(1), 187–195.
Examples
data(gtex)
summary(gtex)