Simple Models of Assortment through Environmental Feedback. - John W. Pepper (Artif. Life, 2007)

Animal Cell Differentiation Patterns Suppress Somatic Evolution. - John W. Pepper; Kathleen Sprouffske; Carlo C. Maley (PLoS Comput. Biol., 2007)

How can evolutionary theory accommodate recent empirical results on organismal senescence? - Joshua Mitteldorf; John W. Pepper (Theory Biosci., 2007)

Individual optimization efforts and population dynamics: a mathematical model for the evolution of resource allocation strategies, with applications to reproductive and mating systems. - Jürgen Jost; John W. Pepper (Theory Biosci., 2008)

Efficient Use of Variation in Evolutionary Optimization. - John W. Pepper (Appl. Comput. Intell. Soft Comput., 2010)