Joyce, Aoife, McCarthy, Charley G.P., Murphy, Sinead and Walsh, Fiona (2019) Antibiotic resistomes of healthy pig faecal metagenomes. Microbial Genomics, 5 (5). ISSN 2057-5858

McCarthy, Charley G.P. and Fitzpatrick, David A. (2019) Pan-genome analyses of model fungal species. Microbial Genomics, 5 (2). 000243. ISSN 2057-5858

McCarthy, Charley G.P. and Fitzpatrick, David A. (2019) Pangloss: A Tool for Pan-Genome Analysis of Microbial Eukaryotes. Genes, 10 (521). ISSN 2073-4425

Waldron, Rose, McGowan, Jamie, Gordon, Natasha, McCarthy, Charley G.P., Mitchell, E. Bruce and Fitzpatrick, David A. (2019) Proteome and allergenome of the European house dust mite Dermatophagoides pteronyssinus. PLoS ONE, 14 (5). e0216171. ISSN 1932-6203

O'Connor, Eoin, McGowan, Jamie, McCarthy, Charley G.P., Amini, Anica, Grogan, Helen and Fitzpatrick, David A. (2019) Whole Genome Sequence of the Commercially Relevant Mushroom Strain Agaricus bisporus var. bisporus ARP23. G3, 9. pp. 3057-3066. ISSN 2160-1836

McCarthy, Charley G.P. (2019) A tale of two clades: genome evolution of oomycetes and fungi. PhD thesis, National University of Ireland Maynooth.

Rahman, Farzana, Hassan, Mehedi, Hanano, Abdulsamie, Fitzpatrick, David A., McCarthy, Charley G.P. and Murphy, Denis (2018) Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi. BMC Genomics, 19 (976). ISSN 1471-2164

O'Brien, Caoimhe E., McCarthy, Charley G.P., Walshe, Annie E., Shaw, Dennis R., Sumski, Deirdre A., Krassowski, Tadeusz, Fitzpatrick, David A. and Butler, Geraldine (2018) Genome analysis of the yeast Diutina catenulata, a member of the Debaryomycetaceae/Metschnikowiaceae (CTG-Ser) clade. PLoS ONE, 13 (6). e0198957. ISSN 1932-6203

McCarthy, Charley G.P. and Fitzpatrick, David A. (2017) Multiple Approaches to Phylogenomic Reconstruction of the Fungal Kingdom. Advances in genetics, 100. pp. 211-266. ISSN 0065-2660

McCarthy, Charley G.P. and Fitzpatrick, David A. (2017) Phylogenomic Reconstruction of the Oomycete Phylogeny Derived from 37 Genomes. Msphere, 2 (2). ISSN 2379-5042

Waldron, Rose, McGowan, Jamie, Gordon, Natasha, McCarthy, Charley G.P., Mitchell, E. Bruce, Doyle, Sean and Fitzpatrick, David A. (2017) Draft Genome Sequence of Dermatophagoides pteronyssinus, the European House Dust Mite. Genome Announcments, 5 (2). e00789-17. ISSN 2169-8287

McCarthy, Charley G.P. and Fitzpatrick, David A. (2016) Systematic Search for Evidence of Interdomain Horizontal Gene Transfer from Prokaryotes to Oomycete Lineages. Msphere, 1 (5). ISSN 2379-5042