Welcome to the Brain xQTL Serve

This is a resource for assessing the impact of genetic variation on multiple types of molecular traits derived from the human brain cortex:

xQTL pipeline


Ng B, White CC, Klein H, Siebert SK, McCabe C, Patrick E, Xu J, Yu L, Gaiteri C, Bennett D, Mostafavi S*, De Jager PL*. “An xQTL map integrates the genetic architecture of the human brain's transcriptome and epigenome.” Nature Neuroscience. 2017.

*co-senior authors


Lists of significant and genome-wide associations, results of mediation analysis and cell-specificity test, as well as code for x-QTL-weighted GWAS are available:

Explore associations between SNPs and molecular traits in your browser!

You can qeury our data in two ways: by providing a (i) SNP rsID, or a (ii) gene symbol.

The query pages takes ~30sec to load, because of the large memory requirement for the genome-wide results.

SNP Query

Query xQTL associations for a specific SNP.

SNP query »

Gene Query

Query SNPs associated with expression levels of a specific gene.

gene query »