Protein Side-Chain Placement Through MAP Estimation and Problem-Size Reduction. - Eun-Jong Hong; Tomás Lozano-Pérez (WABI, 2006)

PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments. - Daniel R. Caffrey; Paul H. Dana; Vidhya Mathur; Marco Ocano; Eun-Jong Hong; Yaoyu E. Wang; Shyamal Somaroo; Brian E. Caffrey; Shobha Potluri; Enoch S. Huang (BMC Bioinform., 2007)

Exact rotamer optimization for computational protein design. - Eun-Jong Hong (2008)

Rotamer optimization for protein design through MAP estimation and problem-size reduction. - Eun-Jong Hong; Shaun M. Lippow; Bruce Tidor; Tomás Lozano-Pérez (J. Comput. Chem., 2009)