Fig. 2

Cluster Analysis and Cellular Enrichment of Differentially Regulated Genes. a. Expression profiles of differentially regulated genes. The heatmap shows the expression patterns of all 3565 Trinity genes differentially regulated in pairwise analyses of all cell types. Both the biological replicates (X-axis) and differentially regulated genes (Y-axis) have been grouped using hierarchical clustering to reveal patterns of relatedness. b. Parameters chosen for clustering analysis. The dendrogram shown in the Y-axis in (a), with the height cutoff chosen for the following cluster analysis (1.6) shown as a grey dotted line; colored bars denote the resultant clusters. c. Patterns of expression among clusters of differentially regulated genes. The colored lines on the graph indicate the centroid of normalized expression of all genes in the indicated cluster for each biological replicate. Colors denote the same clusters as shown in (b). d. Cluster Enrichment Analysis. The heatmap shows both the correlation coefficient (top) and p-value (bottom, in parentheses) for the cluster-trait analysis showing enrichment of the cluster on the Y-axis in genes expressed in a particular cell type (X-axis)