AdipoExpress: Adipose eQTL meta-analysis summary statistics (Brotman et al. bioxriv 2023)
Warning: To download the data, please copy the link address and use wget or curl in the terminal. Clicking on the link to download will not work. Contact Karen Mohlke (karen_mohlke@med.unc.edu) if you need help accessing the data.
AdipoExpress: Adipose eQTL meta-analysis summary statistics (Brotman et al. bioxriv 2023)
Below are the links for:
- Colocus
- Supplemental tables 3-6 with the list of eQTL signals (lead variants per gene per signal)
- Full marginal eQTL summary statistics
- All-but-one conditional eQTL summary statistics
| Colocus: | |
| https://adipose.colocus.app/ | An interactive visualization browser of GWAS-eQTL signal colocalization results |
| eQTL signals (Tables S3-6): | |
| Column label | 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 |
| . | |
| Files for download: | |
| Description | Table S3: Conditionally distinct eQTL meta-analysis results from all participants (all ancestries; n = 2,344) |
| Filename | SuppTable3_AllAncestry_eQTL_signal.txt |
| Size | 4.1 MB |
| Date | 2023-12-04 |
| . | |
| Description | Table S4: Conditionally distinct eQTL meta-analysis results from participants of European ancestry (n = 2,256) |
| Filename | SuppTable4_EURonly_eQTL_signal.txt |
| Size | 4.0 MB |
| Date | 2023-12-04 |
| . | |
| Description | Table S5: Conditionally distinct sex-stratified eQTL meta-analysis results from females of European ancestry (n = 270) |
| Filename | SuppTable5_FemaleOnly_eQTL_signal.txt |
| Size | 901 KB |
| Date | 2023-12-04 |
| . | |
| Description | Table S6: Conditionally distinct sex-stratified eQTL meta-analysis results from males of European ancestry (n = 418) |
| Filename | SuppTable6_MaleOnly_eQTL_signal.txt |
| Size | 1.2 MB |
| Date | 2023-12-04 |
| Marginal eQTL summary stats: | |
| Column label | 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 | Sample size for variant |
| . | |
| Files for download: | |
| Description | Marginal eQTL full summary statistics (European ancestry, n = 2,256) – all results by chromosome |
| Filename | marginal_byChr_EURonly.tar.gz |
| Size | 2.8 GB |
| Date | 2023-12-04 |
| . | |
| Description | Marginal eQTL full summary statistics (All ancestries, n = 2,344) – all results by chromosome |
| Filename | marginal_byChr_AllAncestry.tar.gz |
| Size | 2.8 GB |
| Date | 2023-12-04 |
| . | |
| Description | Marginal eQTL full summary statistics (Female only, n = 270) – all results by chromosome |
| Filename | marginal_byChr_FemaleOnly.tar.gz |
| Size | 2.3 GB |
| Date | 2023-12-04 |
| . | |
| Description | Marginal eQTL full summary statistics (Male only, n = 418) – all results by chromosome |
| Filename | marginal_byChr_MaleOnly.tar.gz |
| Size | 2.4 GB |
| Date | 2023-12-04 |
| Conditional eQTL summary stats: | |
| Column Label | 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 |
| . | |
| Files for download: | |
| Description | All-but-one conditional summary statistics (European ancestry, n = 2,256) – all results by chromosome |
| Filename | AB1_byChr_EURonly.tar.gz |
| Size | 3.9 GB |
| Date | 2023-12-04 |
| . | |
| Description | All-but-one conditional summary statistics (All ancestries, n = 2,344) – all results by chromosome |
| Filename | AB1_byChr_AllAncestry.tar.gz |
| Size | 4.0 GB |
| Date | 2023-12-04 |
| . | |
| Description | All-but-one conditional summary statistics (Female only, n = 270) – all results by chromosome |
| Filename | AB1_byChr_FemaleOnly.tar.gz |
| Size | 264 MB |
| Date | 2023-12-04 |
| . | |
| Description | All-but-one conditional summary statistics (Male only, n = 418) – all results by chromosome |
| Filename | AB1_byChr_MaleOnly.tar.gz |
| Size | 470 MB |
| Date | 2023-12-04 |