AdipoExpress: Adipose eQTL meta-analysis summary statistics

Datasets linked to the publication titled: "Adipose tissue eQTL meta-analysis highlights the contribution of allelic heterogeneity to gene expression regulation and cardiometabolic traits"

Summary statistics from the eQTL meta-analysis of five subcutaneous adipose tissue datasets (AdipoExpress). 

Supplemental tables 3, 4, 10, and 11 with the list of eQTL signals (lead variants per gene per signal)

Supplemental tables 20 and 25 with the list of GWAS-eQTL colocalized signals

Full marginal eQTL summary statistics (marginal_byChr_*.tar.gz)

All-but-one conditional eQTL summary statistics (AB1_byChr_*.tar.gz)

Supplemental tables 3, 4, 10, and 11 with the list of eQTL signals (lead variants per gene per signal)

Column label
Column description

ENSG
Ensembl ID for gene GENCODE v19

gene
Gene symbol

studies
Studies with gene expressed. 1=METSIM (N), 2=METSIM (S), 3=FUSION, 4=TwinsUK, 5=GTEx (1=FUSION, 2=GTEx sex-stratified)

signal
Signal number for the row : the total number of signals for that gene

variant
Chromosome_position_NonEffectAllele_EffectAllele

beta
Variant to gene effect for the joint model with all signals

se
Standard error

pval_joint
p-value of the joint model with all the eQTL variants that pass the 1e-6 stepwise threshold (*Used in the manuscript)

pval_signal
p-value calculated with ACAT to correct for the number of variants per gene and is based on all the variants in a signal

pval_marginal
p-value from the single-variant (marginal) meta-analysis

pval_stepwise
p-value for the lead variant, conditioned on the previously selected variants

Full marginal eQTL summary statistics (marginal_byChr_*.tar.gz)

Column label
Column description

chr
Chromosome

pos
Position (hg19)

ref
Reference allele (non-effect allele)

alt
Alternative allele (effect allele)

SNP
Chromosome_position_NonEffectAllele_EffectAllele

ENSG
Ensembl ID for gene GENCODE v19

gene
Gene symbol

studies
Studies with gene expressed. 1=METSIM (N), 2=METSIM (S), 3=FUSION, 4=TwinsUK, 5=GTEx (1=FUSION, 2=GTEx sex-stratified)

beta
Effect size of association between variant and gene

se
Standard error

pval
p-value of association between variant and gene

N

All-but-one conditional eQTL summary statistics (AB1_byChr_*.tar.gz)

Column label
Column description

gene
Gene symbol

ENSG
Ensembl ID for gene GENCODE v19

SNP
Chromosome_position_NonEffectAllele_EffectAllele

ref
Reference allele (non-effect allele)

alt
Alternative allele (effect allele)

beta
Effect size of association between variant and gene

se
Standard error

pval
p-value of association between variant and gene

lead_SNP
Lead SNP for the signal

EAF
Effect allele frequency

SNP_N
SNP sample size

studies
Studies with gene expressed. 1=METSIM (N), 2=METSIM (S), 3=FUSION, 4=TwinsUK, 5=GTEx (1=FUSION, 2=GTEx sex-stratified)

gene_N
Gene sample size