Cathal Seoighe
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Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection
BF Keele, EE Giorgi, JF Salazar-Gonzalez, JM Decker, KT Pham, ...
Proceedings of the National Academy of Sciences 105 (21), 7552-7557, 2008
A flexible R package for nonnegative matrix factorization
R Gaujoux, C Seoighe
BMC bioinformatics 11 (1), 1-9, 2010
Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants
MR Abrahams, JA Anderson, EE Giorgi, C Seoighe, K Mlisana, LH Ping, ...
Journal of virology 83 (8), 3556-3567, 2009
Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome
C Seoighe, C Gehring
Trends in Genetics 20 (10), 461-464, 2004
Genome-wide analysis of the structure of the South African Coloured Population in the Western Cape
E De Wit, W Delport, CE Rugamika, A Meintjes, M Möller, PD Van Helden, ...
Human genetics 128 (2), 145-153, 2010
Robust inference of positive selection from recombining coding sequences
K Scheffler, DP Martin, C Seoighe
Bioinformatics 22 (20), 2493-2499, 2006
Yeast genome evolution in the post-genome era
C Seoighe, KH Wolfe
Current opinion in microbiology 2 (5), 548-554, 1999
HIV evolution in early infection: selection pressures, patterns of insertion and deletion, and the impact of APOBEC
N Wood, T Bhattacharya, BF Keele, E Giorgi, M Liu, B Gaschen, ...
PLoS pathogens 5 (5), e1000414, 2009
Immune and genetic correlates of vaccine protection against mucosal infection by SIV in monkeys
NL Letvin, SS Rao, DC Montefiori, MS Seaman, Y Sun, SY Lim, WW Yeh, ...
Science translational medicine 3 (81), 81ra36-81ra36, 2011
CellMix: a comprehensive toolbox for gene expression deconvolution
R Gaujoux, C Seoighe
Bioinformatics 29 (17), 2211-2212, 2013
Transmission of HIV-1 CTL escape variants provides HLA-mismatched recipients with a survival advantage
DR Chopera, Z Woodman, K Mlisana, M Mlotshwa, DP Martin, C Seoighe, ...
PLoS pathogens 4 (3), e1000033, 2008
Prevalence of small inversions in yeast gene order evolution
C Seoighe, N Federspiel, T Jones, N Hansen, V Bivolarovic, R Surzycki, ...
Proceedings of the National Academy of Sciences 97 (26), 14433-14437, 2000
Extent of genomic rearrangement after genome duplication in yeast
C Seoighe, KH Wolfe
Proceedings of the National Academy of Sciences 95 (8), 4447-4452, 1998
Incidence of HIV-1 dual infection and its association with increased viral load set point in a cohort of HIV-1 subtype C-infected female sex workers
J Grobler, CM Gray, C Rademeyer, C Seoighe, G Ramjee, SA Karim, ...
The Journal of infectious diseases 190 (7), 1355-1359, 2004
Updated map of duplicated regions in the yeast genome
C Seoighe, KH Wolfe
Gene 238 (1), 253-261, 1999
Gene-set analysis is severely biased when applied to genome-wide methylation data
P Geeleher, L Hartnett, LJ Egan, A Golden, RA Raja Ali, C Seoighe
Bioinformatics 29 (15), 1851-1857, 2013
Evolution of gene order and chromosome number in Saccharomyces, Kluyveromyces and related fungi
RS Keogh, C Seoighe, KH Wolfe
Yeast 14 (5), 443-457, 1998
Semi-supervised Nonnegative Matrix Factorization for gene expression deconvolution: a case study
R Gaujoux, C Seoighe
Infection, Genetics and Evolution 12 (5), 913-921, 2012
RNA: DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships
J Nadel, R Athanasiadou, C Lemetre, NA Wijetunga, P Ó Broin, H Sato, ...
Epigenetics & chromatin 8 (1), 1-19, 2015
Comparison of viral Env proteins from acute and chronic infections with subtype C human immunodeficiency virus type 1 identifies differences in glycosylation and CCR5 …
LH Ping, SB Joseph, JA Anderson, MR Abrahams, JF Salazar-Gonzalez, ...
Journal of virology 87 (13), 7218-7233, 2013
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