Using Parsimony to Guide Maximum Likelihood Searches. - Kenneth Sundberg; Timothy O'Connor; Hyrum Carroll; Mark J. Clement; Quinn Snell (BIBE, 2007)

DNA reference alignment benchmarks based on tertiary structure of encoded proteins. - Hyrum Carroll; Wesley A. Beckstead; Timothy O'Connor; Mark T. W. Ebbert; Mark J. Clement; Quinn Snell; David A. McClellan (Bioinform., 2007)

Pharmacogenomics: analysing SNPs in the CYP2D6 gene using amino acid properties. - Mark T. W. Ebbert; Wesley A. Beckstead; Timothy O'Connor; Mark J. Clement; David A. McClellan (Int. J. Bioinform. Res. Appl., 2007)

Parsimony accelerated Maximum Likelihood searches. - Kenneth Sundberg; Timothy O'Connor; Hyrum Carroll; Mark J. Clement; Quinn Snell (Int. J. Comput. Biol. Drug Des., 2008)

Analysis of Long Branch Extraction. - Timothy O'Connor; Kenneth Sundberg; Hyrum Carroll; Mark J. Clement; Quinn Snell (BIOCOMP, 2009)

Automatic Reassembly of Three-Dimensional Jigsaw Puzzles. - Anna Grim; Timothy O'Connor; Peter J. Olver; Chehrzad Shakiban; Ryan Slechta; Robert Thompson 007 (Int. J. Image Graph., 2016)

Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. - Khader Shameer; Benjamin S. Glicksberg; Rachel Hodos; Kipp W. Johnson; Marcus A. Badgeley; Ben Readhead; Max S. Tomlinson; Timothy O'Connor; Riccardo Miotto; Brian A. Kidd; Rong Chen 006; Avi Ma'ayan; et al. (Briefings Bioinform., 2018)

T-Gene: improved target gene prediction. - Timothy O'Connor; Charles E. Grant; Mikael Bodén; Timothy L. Bailey (Bioinform., 2020)