MANET: tracing evolution of protein architecture in metabolic networks. - Hee Shin Kim; Jay E. Mittenthal; Gustavo Caetano-Anollés (BMC Bioinform., 2006)

BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. - Hee Shin Kim; Terence Murphy; Jing Xia; Doina Caragea; Yoonseong Park; Richard W. Beeman; Marcé D. Lorenzen; Stephen Butcher; J. Robert Manak; Susan J. Brown (Nucleic Acids Res., 2010)

Widespread Recruitment of Ancient Domain Structures in Modern Enzymes during Metabolic Evolution. - Hee Shin Kim; Jay E. Mittenthal; Gustavo Caetano-Anollés (J. Integr. Bioinform., 2013)

Leveraging Prior Information to Detect Causal Variants via Multi-Variant Regression. - Nanye Long; Samuel P. Dickson; Jessica M. Maia; Hee Shin Kim; Qianqian Zhu; Andrew S. Allen (PLoS Comput. Biol., 2013)