(affecting hepatic lipase activity, Deeb and Peng, 2000) are among the variants with largest evidence of being causal. Rs2043085 that had the lowest P-value in single-SNP testing showed less evidence of being causal than rs7350789 (r2=0.81). Indeed, there is substantial evidence that the configuration from standard conditional analysis (rs2043085, rs1800588 and rs113298164) is not the causal one; the top 3 configurations from FINEMAP have between 50 and 190 times higher likelihood values. This demonstrates the importance of jointly modeling the SNPs in the region. Given that FINEMAP completes in less than 30 s (Intel Haswell E5-2690v3 processor running at 2.6GHz) while the exhaustive search implemented in CAVIARBF is estimated to run over 300 years on these data, this example demonstrates the utility of FINEMAP as a tool to carry out future fine-mapping analyses.
