domains / families / science / colocalization-analysis

colocalization-analysis

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Test whether two or more traits share a causal variant at a locus using Bayesian colocalization (coloc.abf, coloc.susie, HyPrColoc, moloc, eCAVIAR, SMR/HEIDI, PWCoCo, SharePro). Use when integrating GWAS with eQTL/sQTL/pQTL/mQTL, distinguishing shared causal variants from LD-driven coincidence, handling allelic heterogeneity, choosing between single-causal vs multi-causal methods, picking PP.H4 thresholds, running sensitivity over p12, or harmonising summary statistics for colocalization.

When to use

• Bayesian colocalization
• Integrating GWAS with eQTL/sQTL/pQTL/mQTL
• Distinguishing shared causal variants from LD-driven coincidence
• Handling allelic heterogeneity
• Choosing between single-causal vs multi-causal methods
• Picking PP.H4 thresholds
• Running sensitivity over p12
• Harmonising summary statistics for colocalization

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