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Population genetics inference for longitudinally-sampled mutants under strong selection.
Lacerda M, Seoighe C. Lacerda M, et al. Among authors: seoighe c. Genetics. 2014 Nov;198(3):1237-50. doi: 10.1534/genetics.114.167957. Epub 2014 Sep 10. Genetics. 2014. PMID: 25213172 Free PMC article.
Turning the clock back on ancient genome duplication.
Seoighe C. Seoighe C. Curr Opin Genet Dev. 2003 Dec;13(6):636-43. doi: 10.1016/j.gde.2003.10.005. Curr Opin Genet Dev. 2003. PMID: 14638327 Review.
Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome.
Seoighe C, Gehring C. Seoighe C, et al. Trends Genet. 2004 Oct;20(10):461-4. doi: 10.1016/j.tig.2004.07.008. Trends Genet. 2004. PMID: 15363896
Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction.
Seoighe C, Gehring C, Hurst LD. Seoighe C, et al. PLoS Genet. 2005 Aug;1(2):e13. doi: 10.1371/journal.pgen.0010013. Epub 2005 Aug 5. PLoS Genet. 2005. PMID: 16110339 Free PMC article.
A Bayesian model comparison approach to inferring positive selection.
Scheffler K, Seoighe C. Scheffler K, et al. Among authors: seoighe c. Mol Biol Evol. 2005 Dec;22(12):2531-40. doi: 10.1093/molbev/msi250. Epub 2005 Aug 24. Mol Biol Evol. 2005. PMID: 16120799
Robust inference of positive selection from recombining coding sequences.
Scheffler K, Martin DP, Seoighe C. Scheffler K, et al. Among authors: seoighe c. Bioinformatics. 2006 Oct 15;22(20):2493-9. doi: 10.1093/bioinformatics/btl427. Epub 2006 Aug 7. Bioinformatics. 2006. PMID: 16895925
Maximum likelihood inference of imprinting and allele-specific expression from EST data.
Seoighe C, Nembaware V, Scheffler K. Seoighe C, et al. Bioinformatics. 2006 Dec 15;22(24):3032-9. doi: 10.1093/bioinformatics/btl521. Epub 2006 Oct 11. Bioinformatics. 2006. PMID: 17038342
Comparative evolutionary analysis of the FoxG1 transcription factor from diverse vertebrates identifies conserved recognition sites for microRNA regulation.
Bredenkamp N, Seoighe C, Illing N. Bredenkamp N, et al. Among authors: seoighe c. Dev Genes Evol. 2007 Mar;217(3):227-33. doi: 10.1007/s00427-006-0128-x. Epub 2007 Jan 27. Dev Genes Evol. 2007. PMID: 17260156
A model of directional selection applied to the evolution of drug resistance in HIV-1.
Seoighe C, Ketwaroo F, Pillay V, Scheffler K, Wood N, Duffet R, Zvelebil M, Martinson N, McIntyre J, Morris L, Hide W. Seoighe C, et al. Mol Biol Evol. 2007 Apr;24(4):1025-31. doi: 10.1093/molbev/msm021. Epub 2007 Feb 1. Mol Biol Evol. 2007. PMID: 17272680
We have implemented standard maximum likelihood methods that are used to detect diversifying selection and adapted them for use with serially sampled reverse transcriptase (RT) coding sequences isolated from a group of 300 HIV-1 subtype C-infected women before and after si …
We have implemented standard maximum likelihood methods that are used to detect diversifying selection and adapted them for use with seriall …
Genome-wide survey of allele-specific splicing in humans.
Nembaware V, Lupindo B, Schouest K, Spillane C, Scheffler K, Seoighe C. Nembaware V, et al. Among authors: seoighe c. BMC Genomics. 2008 Jun 2;9:265. doi: 10.1186/1471-2164-9-265. BMC Genomics. 2008. PMID: 18518984 Free PMC article.
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