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. 2019 Apr 24;14(4):e0202063. doi: 10.1371/journal.pone.0202063

Table 1. ALSPAC nominal gene overrepresentation.

Brain Region Mega-modules kg MM-Sn MM-Sn qFDR Overrep. p Gene IASPSAD GWAS p ALSPAC GWAS p
PFC aliceblue 392 11.19 <1E-16* 0.063 CPM 0.493 6.48E-05*
          CACNB2 0.978 4.97E-04*
          EIF5A2 0.163 8.06E-04*
          RSL1D1 3.48E-04* 0.217
          SMARCA2 4.91E-04* 0.877
            KIAA1217 8.84E-04* 0.904
  cadetblue 125 6.30 1.08E-06* 0.013* BCAS2 0.029 4.65E-04*
          PIK3C2A 0.432 9.52E-04*
          RSL1D1 3.48E-04* 0.217
            AKT2 3.90E-05* 0.980
NAc cadetblue2 195 8.04 8.06E-16* 0.042 CPM 0.493 6.48E-05*
            MGST3 0.358 4.62E-04*
  gray26 12 6.39 9.95E-11* <0.001* PCDH7 0.007 2.10E-04*
            BCAS2 0.029 4.65E-04*
VTA coral 399 4.78 1.00E-06* 0.068 CPM 0.493 6.48E-05*
            DENND2C 0.018 4.33E-04*
            BIRC7 0.930 4.37E-04*
            MGST3 0.358 4.62E-04*
            PIK3CA 7.06E-05* 0.007
            TNN 3.00E-04* 0.018
            ANO6 6.32E-04* 0.780
            SMARCA2 4.91E-04* 0.877
            SIMC1 2.04E-04* 0.977
  limegreen 220 5.22 1.19E-07* 0.054 DENND2C 0.018 4.33E-04*
            EIF5A2 0.163 8.06E-04*
            RSL1D1 3.48E-04* 0.217
            CCND2 1.94E-04* 0.603
            AKT2 3.90E-05* 0.980
  bisque 89 6.22 7.57E-10* 0.006* ACLY 0.701 2.21E-04*
            PRKG1 0.647 8.26E-04*
            AKT2 3.90E-05* 0.980

The following characteristics are displayed for each mega-module that contained >1 ALSPAC-nominal gene: affiliated brain region; total number of constituent genes (kg); constituent ALSPAC- and IASPSAD-nominal genes; empirical p-values for ALSPAC-nominal overrepresentation (Overrep. p); MM-Sn,and the associated False Discovery Rate (MM-Sn qFDR).

* Significant p-values: p<0.05 for MM Sn; p<0.05/n for ALSPAC overrepresentation, where n = number of tests per brain region; p<0.001 for IASPSAD and ALPSAC GWAS.