Involvement of HuD in regulating expression of genes within the yellow module.
We examined the expression and role of HuD in modulating the response of neurons to chronic seizures. a) Barplot summarizing the fold changes of HuD within the blue module due to seizures in the right (lesioned) and left (non-lesioned) hemispheres separately. HuD shows significantly higher levels of expression in animals with seizures than animals without seizures, regardless of hemisphere (p<0.05). β-actin was used as a loading control for qRT-PCR. Error bars represent the standard deviation. b) Enrichment plot of HuD target genes showing their concordance with chronic seizures. The x-axis represents the list of genes that is ranked by their correlation with the seizure phenotype, where the red area denotes positive correlation with seizures and the blue area denotes negative correlation with seizures. The black lines on the x-axis show the location of the HuD target genes within the list of genes ranked by their correlation with seizures. The y-axis represents the enrichment score of HuD target genes within the ranked list of genes. This plot demonstrates that HuD targets show a significant correspondence with the effect due to chronic seizures (p<0.01). c) Boxplot showing the connectivity for probes interrogating regions 5′ to known polyadenylation sites and 3′ to known polyadenylation sites. The y-axis shows the distribution of connectivity (kME) for the different groups of probes, where the thick black line represents the mean, the box represents one standard deviation, and the dotted lines represent three standard deviations. Probes that target regions that are 3′ to known polyadenylation sites demonstrate significantly higher connectivity than other probes that target regions that are 5′ to known polyadenylation sites (p<0.001).