Simulation and verification for computational modelling of signalling pathways. - Marta Z. Kwiatkowska; Gethin Norman; David Parker 001; Oksana Tymchyshyn; John Heath; Eamonn A. Gaffney (WSC, 2006)

Glyph-Based Video Visualization for Semen Analysis. - Brian Duffy; Jeyarajan Thiyagalingam; Simon J. Walton; David J. Smith; Anne E. Trefethen; Jackson C. Kirkman-Brown; Eamonn A. Gaffney; Min Chen 001 (IEEE Trans. Vis. Comput. Graph., 2015)

Turing's Theory of Developmental Pattern Formation. - Philip K. Maini; Thomas E. Woolley; Eamonn A. Gaffney; Ruth E. Baker (The Once and Future Turing, 2016)

Domain Size Driven Instability: Self-Organization in Systems with Advection. - Václav Klika; Michal Kozák; Eamonn A. Gaffney (SIAM J. Appl. Math., 2018)

A method for the inference of cytokine interaction networks. - Joanneke E. Jansen; Dominik Aschenbrenner; Holm H. Uhlig; Mark C. Coles; Eamonn A. Gaffney (PLoS Comput. Biol., 2022)

Upscaling the Poisson-Nernst-Planck equations for ion transport in weakly heterogeneous charged porous media. - Václav Klika; Eamonn A. Gaffney (Appl. Math. Lett., 2023)

A new local time-decoupled squared Wasserstein-2 method for training stochastic neural networks to reconstruct uncertain parameters in dynamical systems. - Mingtao Xia; Qijing Shen; Philip K. Maini; Eamonn A. Gaffney; Alex Mogilner (CoRR, 2025)