Phylogenomic inference of functional divergence. - Tom A. Williams; Brian E. Caffrey; Xiaowei Jiang; Christina Toft; Mario A. Fares (BMC Bioinform., 2009)

Genome-Wide Functional Divergence after the Symbiosis of Proteobacteria with Insects Unraveled through a Novel Computational Approach. - Christina Toft; Tom A. Williams; Mario A. Fares (PLoS Comput. Biol., 2009)

Asteroid: a new algorithm to infer species trees from gene trees under high proportions of missing data. - Benoit Morel; Tom A. Williams; Alexandros Stamatakis (Bioinform., 2023)