domains / families / science / transcriptome-wide-association

transcriptome-wide-association

separate

Performs gene-level association from GWAS summary statistics via genetically predicted tissue expression using FUSION, PrediXcan, S-PrediXcan, S-MultiXcan, UTMOST, MOSTWAS, kTWAS, EpiXcan, TIGAR-V2, and probabilistic fine-mapping with FOCUS and MA-FOCUS. Use when running TWAS from GWAS sumstats, prioritising candidate causal genes from a GWAS lead locus, picking single-tissue vs cross-tissue models, identifying LD-induced TWAS false positives, choosing ancestry-matched prediction weights, fine-mapping co-regulated TWAS hits, or triangulating TWAS with cis-eQTL Mendelian randomization and colocalization to nominate a causal gene.

When to use

• running TWAS from GWAS sumstats
• prioritising candidate causal genes from a GWAS lead locus
• picking single-tissue vs cross-tissue models
• identifying LD-induced TWAS false positives
• choosing ancestry-matched prediction weights
• fine-mapping co-regulated TWAS hits
• triangulating TWAS with cis-eQTL Mendelian randomization and colocalization

When not to use

• direct evidence of causal mediation

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