Solving Large Scale Phylogenetic Problems using DCM2. - Daniel H. Huson; Lisa Vawter; Tandy J. Warnow (ISMB, 1999)

Ligand-Receptor Pairing Via Tree Comparison. - Vineet Bafna; Sridhar Hannenhalli; Ken Rice; Lisa Vawter (J. Comput. Biol., 2000)

Estimating the Deviation from a Molecular Clock. - Luay Nakhleh; Usman Roshan; Lisa Vawter; Tandy J. Warnow (WABI, 2002)

Performance study of phylogenetic methods: (unweighted) quartet methods and neighbor-joining. - Katherine St. John; Tandy J. Warnow; Bernard M. E. Moret; Lisa Vawter (J. Algorithms, 2003)