A New Algorithm for the Alignment of Multiple Protein Structures Using Monte Carlo Optimization. - Chittibabu Guda; Eric D. Scheeff; Philip E. Bourne; Ilya N. Shindyalov (Pacific Symposium on Biocomputing, 2001)

CE-MC: a multiple protein structure alignment server. - Chittibabu Guda; Sifang Lu; Eric D. Scheeff; Philip E. Bourne; Ilya N. Shindyalov (Nucleic Acids Res., 2004)

Structural Evolution of the Protein Kinase-Like Superfamily. - Eric D. Scheeff; Philip E. Bourne (PLoS Comput. Biol., 2005)

Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. - Eric D. Scheeff; Philip E. Bourne (BMC Bioinform., 2006)

Con-Struct Map: a comparative contact map analysis tool. - Jo-Lan Chung; John E. Beaver; Eric D. Scheeff; Philip E. Bourne (Bioinform., 2007)