Haggerty, Leanne S., Jachiet, Pierre-Alain, Hanage, William P., Fitzpatrick, David A., Lopez, Philippe, O'Connell, Mary J., Pisani, Davide, Wilkinson, Mark, Bapteste, Eric and McInerney, James O. (2014) A Pluralistic Account of Homology: Adapting the Models to the Data. Molecular Biology and Evolution, 31 (3). pp. 501-506. ISSN 0737-4038
Haggerty, Leanne S. (2012) Exploring the Non-vertical Component of Bacterial Evolution Using Network Structures. PhD thesis, National University of Ireland Maynooth.
Haggerty, Leanne S., Martin, Fergal J., Fitzpatrick, David A. and McInerney, James O. (2009) Gene and genome trees conflict at many levels. Philosophical Transactions of the Royal Society B, 364 (1527). pp. 2209-2219. ISSN 0080-4622