J. S. Liu

PhyloAcc-GT improves upon PhyloAcc by accounting for gene tree discordance due to incomplete lineage sorting, enhancing accuracy in detecting substitution rate shifts linked to specific lineages.

This paper introduces PhyloAcc, a Bayesian method to detect substitution rate changes in conserved noncoding elements across phylogenies, showing improved accuracy over existing methods in identifying rate shifts associated with convergent phenotypes.

This study shows that convergent flightlessness in palaeognathous birds is associated with regulatory changes rather than protein-coding gene evolution.