Genome duplication and the evolution of gene Order and chromosome number in yeast. - Cathal Seoighe; Denis C. Shields; Kenneth H. Wolfe (German Conference on Bioinformatics, 1997)

FRAGS: estimation of coding sequence substitution rates from fragmentary data. - Estienne C. Swart; Winston A. Hide; Cathal Seoighe (BMC Bioinform., 2004)

Very Low Power to Detect Asymmetric Divergence of Duplicated Genes. - Cathal Seoighe; Konrad Scheffler (Comparative Genomics, 2005)

Robust inference of positive selection from recombining coding sequences. - Konrad Scheffler; Darren P. Martin; Cathal Seoighe (Bioinform., 2006)

Maximum likelihood inference of imprinting and allele-specific expression from EST data. - Cathal Seoighe; Victoria Nembaware; Konrad Scheffler (Bioinform., 2006)

MScanner: a classifier for retrieving Medline citations. - Graham L. Poulter; Daniel L. Rubin; Russ B. Altman; Cathal Seoighe (BMC Bioinform., 2008)

Models of coding sequence evolution. - Wayne Delport; Konrad Scheffler; Cathal Seoighe (Briefings Bioinform., 2009)

A flexible R package for nonnegative matrix factorization. - Renaud Gaujoux; Cathal Seoighe (BMC Bioinform., 2010)

Investigating the effect of paralogs on microarray gene-set analysis. - Andre J. Faure; Cathal Seoighe; Nicola J. Mulder (BMC Bioinform., 2011)

Evidence for intron length conservation in a set of mammalian genes associated with embryonic development. - Cathal Seoighe; Paul K. Korir (BMC Bioinform., 2011)

CellMix: a comprehensive toolbox for gene expression deconvolution. - Renaud Gaujoux; Cathal Seoighe (Bioinform., 2013)

Gene-set analysis is severely biased when applied to genome-wide methylation data. - Paul Geeleher; Lori Hartnett; Laurance J. Egan; Aaron Golden; Raja Affendi Raja Ali; Cathal Seoighe (Bioinform., 2013)

Promiscuous mRNA splicing under the control of AIRE in medullary thymic epithelial cells. - Peter Keane; Rhodri Ceredig; Cathal Seoighe (Bioinform., 2015)

Seq-ing improved gene expression estimates from microarrays using machine learning. - Paul K. Korir; Paul Geeleher; Cathal Seoighe (BMC Bioinform., 2015)

Consistency in large pharmacogenomic studies. - Paul Geeleher; Eric R. Gamazon; Cathal Seoighe; Nancy J. Cox; Rong Stephanie Huang (Nat., 2016)

Random-effects meta-analysis of effect sizes as a unified framework for gene set analysis. - Mohammad A. Makrooni; Donal O'Shea; Paul Geeleher; Cathal Seoighe (PLoS Comput. Biol., 2022)

Performance assessment of computational tools to detect microsatellite instability. - Harrison Anthony; Cathal Seoighe (Briefings Bioinform., 2024)

Regulatory landscape enrichment analysis (RLEA): a computational toolkit for non-coding variant enrichment and cell type prioritization. - Samuel Rosean; Eric A. Sosa; Donal F. O'Shea; Srilakshmi M. Raj; Cathal Seoighe; John M. Greally (BMC Bioinform., 2024)