Fig. 3.

Human coexpression network modules enriched in mammal-specific enhancers. (A, Left) Coexpression network constructed using module eigengene expression correlations (modules with an absolute correlation coefficient ≥0.2 are visualized). The permutation strategy described in Fig. S2A was used to identify modules that are enriched in mammal-specific enhancers; modules enriched during at least one human time point are colored in orange. Enriched modules associated with axon guidance are numbered. (Right) Axon guidance genes (KEGG annotations) in module 3 that are associated with one or more mammal-specific enhancers at the late embryonic human time point are colored in orange; for modules 4 and 7, the genes are listed. See also Dataset S2 and Dataset S3. (B) Summary of functional categories that are significantly enriched in mammal-specific neocortical enhancers (colored in orange) in modules that are also enriched in mammal-specific enhancers. The axon guidance KEGG pathway was partitioned by subpathway (as described in Fig. 2), and each subpathway was also tested by module for enrichment with mammal-specific enhancers. See also Dataset S2.