Random-effects meta-analysis of effect sizes as a unified framework for gene set analysis
Fig 5
Ranking of disease-associated gene sets in corresponding gene expression experiments.
The proportion of times the disease-associated gene set was included in the x top-ranked gene sets as a function of x. The MREMA tests had higher values of this proportion than established methods when only the most highly ranked gene sets were considered (i.e. low values of x, corresponding to the left-hand side of the plot). The 1DF test maintained this advantage for longer than the other two tests, with GSEA matching the performance of the 1DF test by the right-hand side of the plot. A fold-change threshold of 1.5 was used for the MREMA tests. The position of the disease-associated sets in the full ranking is available in supplementary data (S1 Table).