MAGMA: Generalized Gene-Set Analysis of GWAS Data
Fig 3
Comparison of competitive gene-set analysis results.
Gene set -log10 p-values from the CD data competitive gene-set analysis for MAGMA, ALIGATOR, INRICH and MAGENTA. Results for ALIGATOR and INRICH are shown for each for the SNP p-value cutoff that yielded the highest observed power (0.01 and 0.0001 respectively), MAGENTA at the advised 5th percentile cutoff. P-values for gene sets not evaluated by one of the methods are shown in grey. The shown correlations are for the -log10 p-values for gene-sets evaluated by both methods.