C
Cathal Seoighe
Researcher at National University of Ireland, Galway
Publications - 114
Citations - 8223
Cathal Seoighe is an academic researcher from National University of Ireland, Galway. The author has contributed to research in topics: Gene & Genome. The author has an hindex of 37, co-authored 108 publications receiving 7381 citations. Previous affiliations of Cathal Seoighe include University College Dublin & South African National Bioinformatics Institute.
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Journal ArticleDOI
Prevalence of small inversions in yeast gene order evolution
Cathal Seoighe,Nancy A. Federspiel,Ted Jones,Nancy F. Hansen,Vesna Bivolarovic,Ray Surzycki,Raquel Tamse,Caridad Komp,Lucas Huizar,Ronald W. Davis,Stewart Scherer,Evelyn Tait,Duncan J. Shaw,David A. Harris,Lee Murphy,Karen Oliver,Kate Taylor,Marie-Adèle Rajandream,Bart Barrell,Kenneth H. Wolfe +19 more
TL;DR: Gene order evolution in two eukaryotes was studied by comparing the Saccharomyces cerevisiae genome sequence to extensive new data from whole-genome shotgun and cosmid sequencing of Candida albicans to estimate that about 1,100 single-gene inversions have occurred since the divergence between these species.
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Transmission of HIV-1 CTL escape variants provides HLA-mismatched recipients with a survival advantage
Denis Chopera,Zenda Woodman,Koleka Mlisana,Mandla Mlotshwa,Darren P. Martin,Cathal Seoighe,Florette K. Treurnicht,Debra Assis de Rosa,Winston Hide,Salim S. Abdool Karim,Clive M. Gray,Carolyn Williamson +11 more
TL;DR: Investigating the relationship between the genotypes of transmitted viruses and prognostic markers of disease progression shows that infection with HLA-B*57/B*5801 escape mutants is associated with lower viral load and higher CD4+ counts.
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Semi-supervised Nonnegative Matrix Factorization for gene expression deconvolution: A case study
Renaud Gaujoux,Cathal Seoighe +1 more
TL;DR: The use of marker genes improves the accuracy of gene expression deconvolution using NMF and is suggested modifications to how the marker gene information is used that may lead to further improvements.
Journal ArticleDOI
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 +5 more
TL;DR: It is shown that gene-set analysis, as it is typically applied to genome-wide methylation assays, is severely biased as a result of differences in the numbers of CpG sites associated with different classes of genes and gene promoters.
Journal ArticleDOI
RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships
Julie Nadel,Rodoniki Athanasiadou,Rodoniki Athanasiadou,Christophe Lemetre,Christophe Lemetre,Neil Ari Wijetunga,Pilib Ó Broin,Hanae Sato,Zhengdong D. Zhang,Jeffrey A. Jeddeloh,Cristina Montagna,Aaron Golden,Cathal Seoighe,John M. Greally +13 more
TL;DR: Overall, there is little to indicate a dependence for RNA:DNA hybrids forming co-transcriptionally, with results from the ribosomal DNA repeat unit instead supporting the intriguing model of RNA generating these structures intrans.