Heat maps showing branch specific ΔlnL4 scores of genes in pathways that score significant in enrichment test (Figure S6)

Heat maps showing branch specific ΔlnL4 scores of genes in pathways that score significant (q < 0.2) in the gene set enrichment test after removing overlap between sets ('pruning'). The ΔlnL4 score is computed as the fourth root of the log-likelihood ratio in the branch site test for positive selection. Branches where a pathway scores significant are marked with a '*'. The genes are grouped by hierarchical clustering to visualize blocks with similar signals among branches. Genes for which ΔlnL4 scores were not available (NA) in a certain branch are depicted in grey. Genes are merged (horizontally) with their paralog(s) into an 'ancestral gene' in the branches preceding a duplication and their scores were included only once in the calculation of the SUMSTAT score for these branches. Genes with (vertically) merged branches represent cases where the sequence of one or more species is missing or excluded, resulting in a single 'average' ΔlnL4 score over multiple branches. We used this score when testing each branch separately.