MetaBrain Brain Gene Expression QTL#

MetaBrain multi-region bulk RNA-seq gene expression data used for validation of eQTL signals in the FunGen-xQTL flagship study.

Contact#

FunGen-xQTL Analysis Team

Study Overview#

• Study name: MetaBrain brain expression eQTL
• Study Description: Large-scale brain eQTL meta-analysis across five brain regions used as a validation and replication resource. All five MetaBrain contexts were used to replicate xQTL signals identified in the ROSMAP, MSBB, and MiGA cohorts.
• Brain regions: Cerebellum, Cortex, Basal ganglia, Spinal cord, Hippocampus
• Reference: Schipper et al. 2021, Nature Neuroscience. doi:10.1038/s41593-021-00976-7

Analysis Details#

MetaBrain summary statistics were obtained from the MetaBrain resource and used as an independent eQTL replication dataset in the FunGen-xQTL flagship analysis. Fine-mapping and colocalization were performed in parallel with the primary FunGen-xQTL datasets.

Links to QTL analysis notebooks#

See MetaBrain processing notebooks in:

• https://github.com/cumc/fungen-xqtl-analysis/tree/main/analysis/MetaBrain

Path(s) to summary statistics#

• MetaBrain portal: https://www.metabrain.nl/

Path(s) to fine-mapping with SuSiE RSS model#

Fine-mapping model objects (SuSiE-RSS, .rds) are available in the finemapping models folder (syn69670592).

Path(s) to TWAS models#

Pre-trained TWAS weight models for this context: syn69670600

Quantile TWAS (qTWAS) models: syn69670611

Path(s) to colocalization with SuSiE-coloc / ColocBoost#

Multi-context colocalization models (ColocBoost): syn69670597

AD GWAS–xQTL colocalization results: syn69865816

AD GWAS–xQTL colocalization models: syn69670630