Matthew W. Hahn

Evolutionary inferences about quantitative traits are affected by underlying genealogical discordance

This study shows hemiplasy affects evolutionary inferences for both quantitative and discrete traits, leading to overestimated evolutionary rates and false positives in phylogenetic analyses.

Gene tree discordance causes apparent substitution rate variation

The paper identifies SPILS as a technical bias causing apparent substitution rate variation due to gene tree discordance, showing its impact on species tree inference and positive selection tests.

Similar efficacies of selection shape mitochondrial and nuclear genes in Drosophila melanogaster and Homo sapiens

The paper compares selection efficacy on mitochondrial and nuclear genes in Drosophila and humans, finding similar selection efficacies despite differences in population size and recombination.

Detection and Polarization of Introgression in a Five-taxon Phylogeny

The paper introduces DFOIL tests to detect and determine the direction of introgression in a symmetric five-taxon phylogeny, improving upon previous methods that incorrectly identified introgression pairs and directions.