Homology Modeling of Glycosyl Hydrolase Family 18 Enzymes and Proteins. - Nathan N. Aronson; Christopher J. Blanchard; Jeffry D. Madura (J. Chem. Inf. Comput. Sci., 1997)

Modeling Studies of Binding of Sea Raven Type II Antifreeze Protein to Ice. - Andrzej Wierzbicki; Jeffry D. Madura; Chris Salmon; Frank D. Sönnichsen (J. Chem. Inf. Comput. Sci., 1997)

CoMFA 3D-QSAR Analysis of HIV-1 RT Nonnucleoside Inhibitors, TIBO Derivatives Based on Docking Conformation and Alignment. - Zhigang Zhou; Jeffry D. Madura (J. Chem. Inf. Model., 2004)

Receptor-Based Modeling and 3D-QSAR for a Quantitative Production of the Butyrylcholinesterase Inhibitors Based on Genetic Algorithm. - Zaheer-ul-Haq; Reaz Uddin 002; Hongbin Yuan; Pavel A. Petukhov; Mohammad Iqbal Choudhary; Jeffry D. Madura (J. Chem. Inf. Model., 2008)

Discovery of Novel Selective Serotonin Reuptake Inhibitors through Development of a Protein-Based Pharmacophore. - Sankar Manepalli; Laura M. Geffert; Christopher K. Surratt; Jeffry D. Madura (J. Chem. Inf. Model., 2011)

β-Amyloid and Neprilysin Computational Studies Identify Critical Residues Implicated in Binding Specificity. - Darrick Pope; Jeffry D. Madura; Michael Cascio (J. Chem. Inf. Model., 2014)

Editorial. - Jaap Heringa; Wentian Li; Jeffry D. Madura (Comput. Biol. Chem., 2016)