FunGen-AD Resources #

About FunGen-AD #

The Alzheimer’s Disease Sequencing Project Functional Genomics Consortium (FunGen-AD) is a collaborative initiative aimed at understanding the molecular mechanisms underlying Alzheimer’s disease through multi-omic and genetic screening approaches.

Available Resources #

FunGen-xQTL #

The FunGen-xQTL project provides comprehensive molecular quantitative trait loci (QTL) analyses across multiple molecular phenotypes, along with integrative analysis for neurodegenerative disorders particularly Alzheimer’s disease:

• xQTL Analysis and xQTL-GWAS Integration Results along with File Format Description
• Study Cohorts - Information about participating cohorts including ROSMAP, Knight ADRC, MSBB, MiGA, MAGENTA, and STARNET
• GWAS Summary Statistics - Alzheimer’s disease GWAS data from major studies (Bellenguez, Kunkle, Wightman, Jansen)
• Molecular Phenotypes - Multi-omic data including:
  • Chromatin accessibility
  • Histone modification
  • DNA methylation
  • Gene expression (bulk RNA-seq, single-cell/nucleus RNA-seq)
  • Alternative splicing (bulk RNA-seq, single-cell/nucleus RNA-seq)g
  • Proteomics
  • Metabolomics
• xQTL Data - Molecular QTL associations across brain regions, cell types, and molecular phenotypes
• Reference Data - LD reference panels and other analytical resources

Software resources implementing the xQTL analysis are also available:

• xQTL Analysis Protocol - Standardized computational protocols for QTL detection and analysis
• xQTL Companion Statistical Methods Implementation - Fine-mapping, enrichment, colocalization, TWAS, and Mendelian randomization tools

Data Access #

All datasets are available through controlled access via:

• Synapse Platform (primary repository)
• NIAGADS (genomics data)

This resource is actively maintained by the FunGen-AD Analysis Working Group