Extended Data Figure 8: Cortex co-expression network analyses.

a, Sample characteristics for the cortex network analyses; additional details available in Supplementary Table 1. b, Average linkage hierarchical clustering using the topological overlap metric for co-expression dissimilarity³⁷. Modules are identified from this dendrogram, which was constructed from a consensus of 100 bootstrapped datasets^51,52 (see Methods). Correlations for each gene to covariates are delineated below the dendrogram (blue, negative; red, positive). Modules are labelled with colours and numerical labels (see Supplementary Table 4 for additional details). CTX.M11 is a module of genes that are not co-expressed (grey module) and was not evaluated in further comparisons. c, Module-trait associations as computed by an LME model with all factors on the x axis used as covariates. Technical covariates were removed as part of adjusting the FPKM values. All P values are displayed where the association passed Bonferroni-corrected P < 0.05. d, Module enrichments for cell-type specific gene expression patterns. Asterisks indicate FDR < 0.05 across all comparisons. e, Enrichment of ASD-associated modules with that from ref. 4. *FDR < 0.05 (see Supplementary Table 4 for details).