PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information. - Florent E. Angly; Beltran Rodriguez-Brito; David Bangor; Pat McNairnie; Mya Breitbart; Peter Salamon; Ben Felts; James Nulton; Joseph Mahaffy; Forest Rohwer (BMC Bioinform., 2005)

Membrane Remodeling and Diffusion of Cytochrome C from a Geometrically Idealized Mitochondrial Crista. - John Manor; Peter Salamon; James Nulton; Joseph Mahaffy; Arlette Baljon; Terrence Frey (BIOCOMP, 2006)

Reference-independent comparative metagenomics using cross-assembly: crAss. - Bas E. Dutilh; Robert Schmieder; James Nulton; Ben Felts; Peter Salamon; Robert A. Edwards; John Mokili (Bioinform., 2012)

Entropy in the Tangled Nature Model of Evolution. - Ty N. F. Roach; James Nulton; Paolo Sibani; Forest Rohwer; Peter Salamon (Entropy, 2017)

More Stages Decrease Dissipation in Irreversible Step Processes. - Peter Salamon; Bjarne Andresen; James Nulton; Ty N. F. Roach; Forest Rohwer (Entropy, 2023)