Fig. 2

Phylogenetic expression profiling reveals coordinated evolution within gene sets. a Overview of traditional phylogenetic profiling (PP; top) and phylogenetic expression profiling (PEP; bottom). PEP uses the quantitative gene expression levels across species rather than the binary presence/absence of a gene. Patterns of coordinated evolution hidden to PP can be potentially uncovered using PEP. b For ciliary genes, pairwise PP correlations increase with PEP correlation strength. c The 662 gene sets with significant PEP scores are clustered by the pairwise correlations between gene sets. The color bar below the dendrogram shows the 15 unique gene set groups the dendrogram was divided into and gene ontology enrichments for each group are highlighted in the same color. Black bars highlight notable groups of gene sets within the larger groups. d Proteasome genes were found to be undergoing coordinated evolution and are shown as a heatmap