fnGWAS

fnGWAS prioritizes and dissects functional noncoding single nucleotide polymorphisms (SNPs) associated with 19 autoimmune diseases by integrating immune cell-specific genomic, epigenetic, transcriptomic, and 3D chromatin interaction data to reveal regulatory mechanisms.

Key Features:

• Multi-Omics Integration: Integrates genomic, epigenetic, transcriptomic, and 3D chromatin interaction data from hundreds of immune cell-specific multi-omics datasets.
• Functional Prioritization: Prioritizes functional noncoding susceptibility SNPs and associates them with gene targets, transcription factor binding, histone modifications, and chromatin accessibility.
• Pathway Enrichment: Performs pathway enrichment of identified target genes, revealing significant enrichment in immunologically relevant pathways.
• Long-Range Chromatin Interactions: Links distal noncoding SNPs to target genes through long-range chromatin interactions, detecting effects on 90.7% of target genes and implicating factors such as CTCF.
• Drug Target Identification: Identifies known or predicted druggable genes and opportunities for drug repurposing, exemplified by NFKB1 and SH2B3.

Scientific Applications:

• Functional Follow-Up: Provides prioritized SNPs and target genes for experimental validation and mechanistic studies of autoimmune disease loci.
• Clinical Drug Development: Supports the identification and prioritization of drug targets and repurposing candidates for autoimmune conditions.

Methodology:

Integrates hundreds of immune cell-specific multi-omics datasets and systematically analyzes functional variants and genes across noncoding regions associated with 19 autoimmune diseases, linking distal SNPs to target genes via long-range chromatin interaction data.