EVEVis: A multi-scale visualization system for dense evolutionary data. - Robert Miller; Vadim Mozhayskiy; Ilias Tagkopoulos; Kwan-Liu Ma (BioVis, 2011)

In Silico Evolution of Multi-scale Microbial Systems in the Presence of Mobile Genetic Elements and Horizontal Gene Transfer. - Vadim Mozhayskiy; Ilias Tagkopoulos (ISBRA, 2011)

A scalable multi-scale framework for parallel simulation and visualization of microbial evolution. - Vadim Mozhayskiy; Bob Miller; Kwan-Liu Ma; Ilias Tagkopoulos (TG, 2011)

Guided evolution of in silico microbial populations in complex environments accelerates evolutionary rates through a step-wise adaptation. - Vadim Mozhayskiy; Ilias Tagkopoulos (BMC Bioinform., 2012)

Horizontal gene transfer dynamics and distribution of fitness effects during microbial in silico evolution. - Vadim Mozhayskiy; Ilias Tagkopoulos (BMC Bioinform., 2012)

A flood-based information flow analysis and network minimization method for gene regulatory networks. - Andreas Pavlogiannis; Vadim Mozhayskiy; Ilias Tagkopoulos (BMC Bioinform., 2013)