Edward Louis Braun

UVfinder identifies sex-linked gene copies in moss genomes, revealing neo-sex chromosome formation and phylogenetic insights from sex-linked loci.

Phlag detects genomic regions with inconsistent evolutionary processes by modeling gene trees as a stochastic process along the genome.

The paper resolves a long-standing paradox in lysozyme evolution by showing that recombination and incomplete lineage sorting explain apparent molecular convergence without requiring fixation of deleterious intermediates.

This study evaluates methods for inferring large-scale avian phylogenies, finding that fast tree search approaches balance computational efficiency and accuracy.

The paper analyzes the phylogenetic position of extinct Hawaiian honeyeaters using ultraconserved elements, overcoming issues with degraded DNA by re-aligning and re-assembling data.

The paper compares phylogenomic methods using a well-resolved bird species tree, finding that ML concatenation performs best, while METAL shows promise with large datasets.

TAPER identifies and removes small stretches of error in sequence alignments while preserving most of the data, improving alignment accuracy.

The paper develops a pipeline for mitochondrial genome assembly and identifies errors and novel duplications in reference mitogenomes.

The paper investigates how structural environments of proteins affect phylogenetic analysis, finding that different structural contexts yield conflicting evolutionary tree topologies.