Gene co-expression modules associated with the TS mutation. (A) Heatmap showing expression pattern of the module genes and a barplot showing the module eigengene pattern across samples for the light cyan and light green modules. (B) Log2 transformed fold changes of the top 20 connected genes in the light cyan and light green modules in cases as compared to controls at the three experimental stages. (C) Module-level enrichment for previously identified ASD and ID associated genes. Enrichment odds ratios are shown in the table if the P <0.1 (*P <0.05, **FDR <0.05). (D-H) Visualization of the co-expression network among the top connected genes (kME >0.6 or top 200 depending on which one is smaller) based on multidimensional scaling of their pairwise co-expression correlations in the (D) light cyan, (E) salmon, (F) light green, (G) magenta, and (H) black module. Genes with multiple probes are labeled separately. Pie chart: ID susceptibility genes (red); ASD susceptibility genes from the SFARI database (yellow) ; genes in the Voineagu et al. asdM12 module (purple) ; genes in the Voineagu et al. asdM16 module (green) . Only the top 1,000 connections are shown in each module.