Figure 3
From: Functional gene group analysis identifies synaptic gene groups as risk factor for schizophrenia
Overview of combined empirical P-values from the total group of synaptic genes and the three subgroups that were significant after correction for multiple testing, obtained from the analysis based on the actual functional gene groups (‘real’, red bars), the five most significant results from the 100 draws for each control method (green bars) as well as the average combined empirical P-value (blue bars) obtained from five control methods across 100 draws. Note that the combined empirical P-values for the real group analysis as well as those for each of the 100 draws in 5 control methods are obtained from 10 000 permutations of the data and are the combined P-values across the three samples. For the ‘all synaptic genes’ group, none of the control methods resulted in a lower P-value than the real analysis (that is, all empirical P-values of the empirical P-values <0.01), for the intracellular signal transduction group, control methods 1, 2, 3, 4, 5 resulted in empirical P-values of the empirical P-values of 0.02, 0.04, 0.03, 0.04 and 0.03 respectively. For Excitability, this was 0.02, 0.03, <0.01, <0.01 and 0.03, respectively, and for cell adhesion and trans-synaptic molecules signaling this was 0.03, 0.04, 0.04, 0.06 and 0.05, respectively. For description of competitive control methods and different null hypotheses tested we refer to Table 1.
