is a Data Source.
The eQTLGen Consortium conducts large-scale meta-analyses of expression quantitative trait loci (eQTLs) in blood samples to investigate the genetic architecture of gene expression and understand the genetic underpinnings of complex traits. Phase I analyzed 31,684 blood and PBMC samples from 37 cohorts, identifying thousands of cis-eQTLs, trans-eQTLs, and expression quantitative trait score (eQTS) associations. The consortium also includes a single-cell eQTLGen project. Phase II is expanding to genome-wide eQTL meta-analysis across even more blood-based cohorts. The resulting summary statistics provide a valuable resource for interpreting genome-wide association studies (GWAS), developing novel methods, and understanding molecular mechanisms of complex traits.
genomics, biological systems
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| eqtlgen.cis_eqtl_significant | Significant cis-eQTLs | 2019-12-11-cis-eQTLsFDR0.05-ProbeLevel-CohortInfoRemoved-BonferroniAdded.txt.gz (307.8 MB) | Product | tsv | Significant cis-eQTL associations fro... |
| eqtlgen.cis_eqtl_full | Full cis-eQTL Summary Statistics | 2019-12-11-cis-eQTLsFDR-ProbeLevel-CohortInfoRemoved-BonferroniAdded.txt.gz (3.6 GB) | Product | tsv | Full cis-eQTL summary statistics from... |
| eqtlgen.trans_eqtl_significant | Significant trans-eQTLs | 2018-09-04-trans-eQTLsFDR0.05-CohortInfoRemoved-BonferroniAdded.txt.gz (1.8 MB) | Product | tsv | Significant trans-eQTL associations f... |
| eqtlgen.trans_eqtl_full | Full trans-eQTL Summary Statistics | 2018-09-04-trans-eQTLsFDR-CohortInfoRemoved-BonferroniAdded.txt.gz (5.7 GB) | Product | tsv | Full trans-eQTL summary statistics fr... |
| eqtlgen.cis_eqtl_smr | SMR-formatted cis-eQTLs | cis-eQTL-SMR_20191212.tar.gz (1.3 GB) | Product | txt | cis-eQTL results formatted for Summar... |
| eqtlgen.allele_frequencies | Allele Frequencies | 2018-07-18_SNP_AF_for_AlleleB_combined_allele_counts_and_MAF_pos_added.txt.gz (228.9 MB) | Product | tsv | Allele frequencies for all tested SNP... |
| eqtlgen.phase1_browser | eQTLGen Phase I Browser | phase1.html | GraphicalInterface | http | Web interface for browsing significan... |
| eqtlgen.phase2_cookbook | eQTLGen Phase II Cookbook | eQTLGen-p2-cookbook.html | DocumentationProduct | http | Analysis cookbook and documentation f... |
| eqtlgen.sc_website | Single-cell eQTLGen Website | sc | GraphicalInterface | http | Website for the single-cell eQTLGen p... |
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| epigraphdb.graph | EpiGraphDB Graph Database | graph-database | GraphProduct | neo4j | Integrated graph knowledge base combi... |
Last modified: October 21, 2025