Computer-aided prediction of RNA secondary structures. - Philip E. Auron; W. P. Rindone; C. P. Vary; J. J. Celentano; J. N. Vournakis (Nucleic Acids Res., 1982)

Computer-aided nucleic acid secondary structure modeling incorporating enzymatic digestion data. - G. J. Quigley; L. Gehrke; D. A. Roth; Philip E. Auron (Nucleic Acids Res., 1984)

Inferring protein-DNA dependencies using motif alignments and mutual information. - Shaun Mahony; Philip E. Auron; Panayiotis V. Benos (ISMB/ECCB (Supplement of Bioinformatics), 2007)

DNA Familial Binding Profiles Made Easy: Comparison of Various Motif Alignment and Clustering Strategies. - Shaun Mahony; Philip E. Auron; Panayiotis V. Benos (PLoS Comput. Biol., 2007)