Comparisons of p-values from three types of pathway analyses on the GERA data.

<p>Based on the GERA data, 4,713 pathways are analyzed in three different ways. Pathway p-values obtained by ARTP using the GERA individual-level genetic data (x-axis) are compared with the ones obtained by sARTP using summary statistics in combination with the internal reference panel that consists of 500 randomly selected GERA samples (left), and the ones using the summary statistics in combination with the external reference panel that consists of 503 European subjects from the 1000 Genomes Project (right).