| Year |
Citation |
Score |
| 2023 |
Sosa EA, Rosean S, O'Shea D, Raj SM, Seoighe C, Greally JM. Regulatory Landscape Enrichment Analysis (RLEA) using gaiaAssociation. Biorxiv : the Preprint Server For Biology. PMID 37905111 DOI: 10.1101/2023.10.11.561933 |
0.605 |
|
| 2023 |
O'Sullivan B, Seoighe C. Comprehensive and realistic simulation of tumour genomic sequencing data. Nar Cancer. 5: zcad051. PMID 37746635 DOI: 10.1093/narcan/zcad051 |
0.584 |
|
| 2023 |
Nembaware V, Bennett D, Chimusa ER, Chikowore T, Daodu R, Bitoungui VN, Williams SM, Fatumo S, Healy S, Seoighe C, Wonkam A. The African Society of Human Genetics successfully launches global data science workshops. Trends in Genetics : Tig. 39: 803-807. PMID 37714735 DOI: 10.1016/j.tig.2023.06.004 |
0.565 |
|
| 2023 |
Staunton PM, Peters AJ, Seoighe C. Somatic mutations inferred from RNA-seq data highlight the Contribution of replication timing to mutation rate variation in a model plant. Genetics. PMID 37450609 DOI: 10.1093/genetics/iyad128 |
0.595 |
|
| 2022 |
Makrooni MA, O'Shea D, Geeleher P, Seoighe C. Random-effects meta-analysis of effect sizes as a unified framework for gene set analysis. Plos Computational Biology. 18: e1010278. PMID 36197939 DOI: 10.1371/journal.pcbi.1010278 |
0.603 |
|
| 2022 |
Makrooni MA, O'Sullivan B, Seoighe C. Bias and inconsistency in the estimation of tumour mutation burden. Bmc Cancer. 22: 840. PMID 35918650 DOI: 10.1186/s12885-022-09897-3 |
0.559 |
|
| 2021 |
Bennett D, O'Shea D, Ferguson J, Morris D, Seoighe C. Controlling for background genetic effects using polygenic scores improves the power of genome-wide association studies. Scientific Reports. 11: 19571. PMID 34599249 DOI: 10.1038/s41598-021-99031-3 |
0.576 |
|
| 2021 |
Cleary S, Seoighe C. Perspectives on Allele-Specific Expression. Annual Review of Biomedical Data Science. 4: 101-122. PMID 34465174 DOI: 10.1146/annurev-biodatasci-021621-122219 |
0.635 |
|
| 2021 |
Kherreh N, Cleary S, Seoighe C. No evidence that HLA genotype influences the driver mutations that occur in cancer patients. Cancer Immunology, Immunotherapy : Cii. PMID 34417841 DOI: 10.1007/s00262-021-03028-w |
0.557 |
|
| 2020 |
Seoighe C, Bracken AP, Buckley P, Doran P, Green R, Healy S, Kavanagh D, Kenny E, Lawler M, Lowery M, Morris D, Morrissey D, O'Byrne JJ, Shields D, Smith O, et al. The future of genomics in Ireland - focus on genomics for health. Hrb Open Research. 3: 89. PMID 33855271 DOI: 10.12688/hrbopenres.13187.1 |
0.577 |
|
| 2020 |
O'Sullivan B, Seoighe C. vcfView: An Extensible Data Visualization and Quality Assurance Platform for Integrated Somatic Variant Analysis. Cancer Informatics. 19: 1176935120972377. PMID 33239857 DOI: 10.1177/1176935120972377 |
0.563 |
|
| 2020 |
Rainey MD, Bennett D, O'Dea R, Zanchetta ME, Voisin M, Seoighe C, Santocanale C. ATR Restrains DNA Synthesis and Mitotic Catastrophe in Response to CDC7 Inhibition. Cell Reports. 32: 108096. PMID 32877678 DOI: 10.1016/J.Celrep.2020.108096 |
0.559 |
|
| 2020 |
Seoighe C, Kiniry SJ, Peters A, Baranov PV, Yang H. Selection Shapes Synonymous Stop Codon Use in Mammals. Journal of Molecular Evolution. PMID 32617614 DOI: 10.1007/S00239-020-09957-X |
0.607 |
|
| 2019 |
Kong Y, Rastogi D, Seoighe C, Greally JM, Suzuki M. Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data. Plos One. 14: e0215987. PMID 31022271 DOI: 10.1371/Journal.Pone.0215987 |
0.605 |
|
| 2018 |
Geeleher P, Nath A, Wang F, Zhang Z, Barbeira AN, Fessler J, Grossman RL, Seoighe C, Stephanie Huang R. Cancer expression quantitative trait loci (eQTLs) can be determined from heterogeneous tumor gene expression data by modeling variation in tumor purity. Genome Biology. 19: 130. PMID 30205839 DOI: 10.1186/S13059-018-1507-0 |
0.567 |
|
| 2018 |
Seoighe C, Tosh NJ, Greally JM. DNA methylation haplotypes as cancer markers. Nature Genetics. PMID 30054597 DOI: 10.1038/S41588-018-0185-X |
0.519 |
|
| 2018 |
Tosh N, Ferguson J, Seoighe C. History by the numbers? Proceedings of the National Academy of Sciences of the United States of America. PMID 29903904 DOI: 10.1073/pnas.1807023115 |
0.514 |
|
| 2018 |
Cathomas F, Azzinnari D, Bergamini G, Sigrist H, Buerge M, Hoop V, Wicki B, Goetze L, Soares S, Kukelova D, Seifritz E, Goebbels S, Nave KA, Said Ghandour M, Seoighe C, et al. Oligodendrocyte gene expression is reduced by and influences effects of chronic social stress in mice. Genes, Brain, and Behavior. e12475. PMID 29566304 DOI: 10.1111/gbb.12475 |
0.565 |
|
| 2017 |
Barnicle A, Seoighe C, Greally JM, Golden A, Egan LJ. Inflammation-associated DNA methylation patterns in epithelium of ulcerative colitis. Epigenetics. 0. PMID 28557546 DOI: 10.1080/15592294.2017.1334023 |
0.596 |
|
| 2017 |
Yu Y, Ceredig R, Seoighe C. Correction: A Database of Human Immune Receptor Alleles Recovered from Population Sequencing Data. Journal of Immunology (Baltimore, Md. : 1950). 198: 3758. PMID 28416721 DOI: 10.4049/jimmunol.1700301 |
0.566 |
|
| 2017 |
Yu Y, Ceredig R, Seoighe C. Response to Comment on "A Database of Human Immune Receptor Alleles Recovered from Population Sequencing Data". Journal of Immunology (Baltimore, Md. : 1950). 198: 3373-3374. PMID 28416713 DOI: 10.4049/jimmunol.1700349 |
0.565 |
|
| 2017 |
Yu Y, Ceredig R, Seoighe C. A Database of Human Immune Receptor Alleles Recovered from Population Sequencing Data. Journal of Immunology (Baltimore, Md. : 1950). PMID 28115530 DOI: 10.4049/jimmunol.1601710 |
0.603 |
|
| 2017 |
Seoighe C, Scally A. Inference of Candidate Germline Mutator Loci in Humans from Genome-Wide Haplotype Data. Plos Genetics. 13: e1006549. PMID 28095480 DOI: 10.1371/journal.pgen.1006549 |
0.61 |
|
| 2016 |
Geeleher P, Gamazon ER, Seoighe C, Cox NJ, Huang RS. Consistency in large pharmacogenomic studies. Nature. 540: E1-E2. PMID 27905415 DOI: 10.1038/nature19838 |
0.543 |
|
| 2016 |
Martin G, Selcuklu SD, Schouest K, Nembaware V, McKeown PC, Seoighe C, Spillane C. Allele-specific splicing effects on DKKL1 and ZNF419 transcripts in HeLa cells. Gene. PMID 27826023 DOI: 10.1016/j.gene.2016.11.004 |
0.603 |
|
| 2016 |
Yang H, Seoighe C. Impact of the Choice of Normalization Method on Molecular Cancer Class Discovery Using Nonnegative Matrix Factorization. Plos One. 11: e0164880. PMID 27741311 DOI: 10.1371/Journal.Pone.0164880 |
0.55 |
|
| 2016 |
Keane PA, Seoighe C. Intron length coevolution across mammalian genomes. Molecular Biology and Evolution. PMID 27550903 DOI: 10.1093/molbev/msw151 |
0.639 |
|
| 2016 |
Barnicle A, Seoighe C, Golden A, Greally JM, Egan LJ. Differential DNA methylation patterns of homeobox genes in proximal and distal colon epithelial cells. Physiological Genomics. physiolgenomics.0004. PMID 26812987 DOI: 10.1152/Physiolgenomics.00046.2015 |
0.564 |
|
| 2015 |
Nadel J, Athanasiadou R, Lemetre C, Wijetunga NA, Ó Broin P, Sato H, Zhang Z, Jeddeloh J, Montagna C, Golden A, Seoighe C, Greally JM. RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships. Epigenetics & Chromatin. 8: 46. PMID 26579211 DOI: 10.1186/S13072-015-0040-6 |
0.558 |
|
| 2015 |
Yu Y, Ceredig R, Seoighe C. LymAnalyzer: a tool for comprehensive analysis of next generation sequencing data of T cell receptors and immunoglobulins. Nucleic Acids Research. PMID 26446988 DOI: 10.1093/nar/gkv1016 |
0.6 |
|
| 2015 |
Korir PK, Geeleher P, Seoighe C. Seq-ing improved gene expression estimates from microarrays using machine learning. Bmc Bioinformatics. 16: 286. PMID 26338512 DOI: 10.1186/s12859-015-0712-z |
0.59 |
|
| 2015 |
Chimusa ER, Meintjies A, Tchanga M, Mulder N, Seoighe C, Seioghe C, Soodyall H, Ramesar R. A genomic portrait of haplotype diversity and signatures of selection in indigenous southern African populations. Plos Genetics. 11: e1005052. PMID 25811879 DOI: 10.1371/journal.pgen.1005052 |
0.608 |
|
| 2015 |
Keane P, Ceredig R, Seoighe C. Promiscuous mRNA splicing under the control of AIRE in medullary thymic epithelial cells. Bioinformatics (Oxford, England). 31: 986-90. PMID 25429061 DOI: 10.1093/bioinformatics/btu785 |
0.55 |
|
| 2015 |
Murray J, Nasheuer HP, Seoighe C, McCormack GP, Michael Williams D, Harper DAT. The contribution of William King to the early development of palaeoanthropology Irish Journal of Earth Sciences. 33: 1-16. DOI: 10.3318/IJES.2015.33.1 |
0.505 |
|
| 2014 |
O'Reilly P, Ortutay C, Gernon G, O'Connell E, Seoighe C, Boyce S, Serrano L, Szegezdi E. Co-acting gene networks predict TRAIL responsiveness of tumour cells with high accuracy. Bmc Genomics. 15: 1144. PMID 25527049 DOI: 10.1186/1471-2164-15-1144 |
0.592 |
|
| 2014 |
Lacerda M, Seoighe C. Population genetics inference for longitudinally-sampled mutants under strong selection. Genetics. 198: 1237-50. PMID 25213172 DOI: 10.1534/genetics.114.167957 |
0.56 |
|
| 2014 |
Korir PK, Roberts L, Ramesar R, Seoighe C. A mutation in a splicing factor that causes retinitis pigmentosa has a transcriptome-wide effect on mRNA splicing. Bmc Research Notes. 7: 401. PMID 24969741 DOI: 10.1186/1756-0500-7-401 |
0.563 |
|
| 2014 |
Fatima A, Lynn DJ, O'Boyle P, Seoighe C, Morris D. The miRNAome of the postpartum dairy cow liver in negative energy balance. Bmc Genomics. 15: 279. PMID 24725334 DOI: 10.1186/1471-2164-15-279 |
0.559 |
|
| 2014 |
Korir PK, Seoighe C. Inference of allele-specific expression from RNA-seq data. Methods in Molecular Biology (Clifton, N.J.). 1112: 49-69. PMID 24478007 DOI: 10.1007/978-1-62703-773-0_4 |
0.635 |
|
| 2014 |
Fatima A, Waters S, O'Boyle P, Seoighe C, Morris DG. Alterations in hepatic miRNA expression during negative energy balance in postpartum dairy cattle. Bmc Genomics. 15: 28. PMID 24428929 DOI: 10.1186/1471-2164-15-28 |
0.541 |
|
| 2013 |
Lacerda M, Moore PL, Ngandu NK, Seaman M, Gray ES, Murrell B, Krishnamoorthy M, Nonyane M, Madiga M, Wibmer CK, Sheward D, Bailer RT, Gao H, Greene KM, Karim SS, ... Seoighe C, et al. Identification of broadly neutralizing antibody epitopes in the HIV-1 envelope glycoprotein using evolutionary models. Virology Journal. 10: 347. PMID 24295501 DOI: 10.1186/1743-422X-10-347 |
0.574 |
|
| 2013 |
Nguyen TT, Seoighe C. Integrative analysis of mRNA expression and half-life data reveals trans-acting genetic variants associated with increased expression of stable transcripts. Plos One. 8: e79627. PMID 24260269 DOI: 10.1371/journal.pone.0079627 |
0.595 |
|
| 2013 |
Floutsakou I, Agrawal S, Nguyen TT, Seoighe C, Ganley AR, McStay B. The shared genomic architecture of human nucleolar organizer regions. Genome Research. 23: 2003-12. PMID 23990606 DOI: 10.1101/gr.157941.113 |
0.619 |
|
| 2013 |
Gaujoux R, Seoighe C. CellMix: a comprehensive toolbox for gene expression deconvolution. Bioinformatics (Oxford, England). 29: 2211-2. PMID 23825367 DOI: 10.1093/bioinformatics/btt351 |
0.607 |
|
| 2013 |
Geeleher P, Hartnett L, Egan LJ, Golden A, Raja Ali RA, Seoighe C. Gene-set analysis is severely biased when applied to genome-wide methylation data. Bioinformatics (Oxford, England). 29: 1851-7. PMID 23732277 DOI: 10.1093/bioinformatics/btt311 |
0.617 |
|
| 2013 |
Ping LH, Joseph SB, Anderson JA, Abrahams MR, Salazar-Gonzalez JF, Kincer LP, Treurnicht FK, Arney L, Ojeda S, Zhang M, Keys J, Potter EL, Chu H, Moore P, Salazar MG, ... Seoighe C, et al. Comparison of viral Env proteins from acute and chronic infections with subtype C human immunodeficiency virus type 1 identifies differences in glycosylation and CCR5 utilization and suggests a new strategy for immunogen design. Journal of Virology. 87: 7218-33. PMID 23616655 DOI: 10.1128/Jvi.03577-12 |
0.567 |
|
| 2013 |
Abrahams MR, Treurnicht FK, Ngandu NK, Goodier SA, Marais JC, Bredell H, Thebus R, de Assis Rosa D, Mlisana K, Seoighe C, Karim SA, Gray CM, Williamson C. Rapid, complex adaptation of transmitted HIV-1 full-length genomes in subtype C-infected individuals with differing disease progression. Aids (London, England). 27: 507-18. PMID 23370465 DOI: 10.1097/QAD.0b013e32835cab64 |
0.612 |
|
| 2012 |
Geeleher P, Huang SR, Gamazon ER, Golden A, Seoighe C. The regulatory effect of miRNAs is a heritable genetic trait in humans. Bmc Genomics. 13: 383. PMID 23272639 DOI: 10.1186/1471-2164-13-383 |
0.553 |
|
| 2012 |
Staff L, Hurd P, Reale L, Seoighe C, Rockwood A, Gehring C. The hidden geometries of the Arabidopsis thaliana epidermis. Plos One. 7: e43546. PMID 22984433 DOI: 10.1371/journal.pone.0043546 |
0.545 |
|
| 2012 |
Gaujoux R, Seoighe C. Semi-supervised Nonnegative Matrix Factorization for gene expression deconvolution: a case study. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 12: 913-21. PMID 21930246 DOI: 10.1016/j.meegid.2011.08.014 |
0.611 |
|
| 2012 |
Seoighe C. Evolution: a view from the 21st century Trends in Evolutionary Biology. 4: 6. DOI: 10.4081/EB.2012.E6 |
0.525 |
|
| 2011 |
Seoighe C, Korir PK. Evidence for intron length conservation in a set of mammalian genes associated with embryonic development. Bmc Bioinformatics. 12: S16. PMID 22151910 DOI: 10.1186/1471-2105-12-S9-S16 |
0.636 |
|
| 2011 |
Jankovic B, Seoighe C, Alqurashi M, Gehring C. Is there evidence of optimisation for carbon efficiency in plant proteomes? Plant Biology (Stuttgart, Germany). 13: 831-4. PMID 21973021 DOI: 10.1111/j.1438-8677.2011.00494.x |
0.528 |
|
| 2011 |
Millane RC, Kanska J, Duffy DJ, Seoighe C, Cunningham S, Plickert G, Frank U. Induced stem cell neoplasia in a cnidarian by ectopic expression of a POU domain transcription factor. Development (Cambridge, England). 138: 2429-39. PMID 21610024 DOI: 10.1242/Dev.064931 |
0.553 |
|
| 2011 |
Letvin NL, Rao SS, Montefiori DC, Seaman MS, Sun Y, Lim SY, Yeh WW, Asmal M, Gelman RS, Shen L, Whitney JB, Seoighe C, Lacerda M, Keating S, Norris PJ, et al. Immune and Genetic Correlates of Vaccine Protection Against Mucosal Infection by SIV in Monkeys. Science Translational Medicine. 3: 81ra36. PMID 21543722 DOI: 10.1126/Scitranslmed.3002351 |
0.547 |
|
| 2011 |
Tikhanovich I, Liang B, Seoighe C, Folk WR, Nasheuer HP. Inhibition of human BK polyomavirus replication by small noncoding RNAs. Journal of Virology. 85: 6930-40. PMID 21543481 DOI: 10.1128/Jvi.00547-11 |
0.557 |
|
| 2011 |
Faure AJ, Seoighe C, Mulder NJ. Investigating the effect of paralogs on microarray gene-set analysis. Bmc Bioinformatics. 12: 29. PMID 21261946 DOI: 10.1186/1471-2105-12-29 |
0.626 |
|
| 2010 |
Seoighe C, Gehring C. Heritability in the efficiency of nonsense-mediated mRNA decay in humans. Plos One. 5: e11657. PMID 20657766 DOI: 10.1371/journal.pone.0011657 |
0.622 |
|
| 2010 |
Gaujoux R, Seoighe C. A flexible R package for nonnegative matrix factorization. Bmc Bioinformatics. 11: 367. PMID 20598126 DOI: 10.1186/1471-2105-11-367 |
0.543 |
|
| 2010 |
de Wit E, Delport W, Rugamika CE, Meintjes A, Möller M, van Helden PD, Seoighe C, Hoal EG. Genome-wide analysis of the structure of the South African Coloured Population in the Western Cape. Human Genetics. 128: 145-53. PMID 20490549 DOI: 10.1007/s00439-010-0836-1 |
0.571 |
|
| 2010 |
Lacerda M, Scheffler K, Seoighe C. Epitope discovery with phylogenetic hidden Markov models. Molecular Biology and Evolution. 27: 1212-20. PMID 20089717 DOI: 10.1093/molbev/msq008 |
0.59 |
|
| 2010 |
Treurnicht FK, Seoighe C, Martin DP, Wood N, Abrahams MR, Rosa Dde A, Bredell H, Woodman Z, Hide W, Mlisana K, Karim SA, Gray CM, Williamson C. Adaptive changes in HIV-1 subtype C proteins during early infection are driven by changes in HLA-associated immune pressure. Virology. 396: 213-25. PMID 19913270 DOI: 10.1016/j.virol.2009.10.002 |
0.594 |
|
| 2009 |
Ngandu NK, Seoighe C, Scheffler K. Evidence of HIV-1 adaptation to host HLA alleles following chimp-to-human transmission. Virology Journal. 6: 164. PMID 19818146 DOI: 10.1186/1743-422X-6-164 |
0.591 |
|
| 2009 |
Illing N, Klak C, Johnson C, Brito D, Negrao N, Baine F, van Kets V, Ramchurn KR, Seoighe C, Roden L. Duplication of the Asymmetric Leaves1/Rough Sheath 2/Phantastica (ARP) gene precedes the explosive radiation of the Ruschioideae. Development Genes and Evolution. 219: 331-8. PMID 19554349 DOI: 10.1007/S00427-009-0293-9 |
0.606 |
|
| 2009 |
Wood N, Bhattacharya T, Keele BF, Giorgi E, Liu M, Gaschen B, Daniels M, Ferrari G, Haynes BF, McMichael A, Shaw GM, Hahn BH, Korber B, Seoighe C. HIV evolution in early infection: selection pressures, patterns of insertion and deletion, and the impact of APOBEC. Plos Pathogens. 5: e1000414. PMID 19424423 DOI: 10.1371/Journal.Ppat.1000414 |
0.596 |
|
| 2009 |
Berman P, Collins M, Baumgarten I, Seoighe C, Jennings CL, Joffe Y, Lambert EV, Levitt NS, Faulenbach MV, Kahn SE, Goedecke JH. Association between the 4 bp proinsulin gene insertion polymorphism (IVS-69) and body composition in black South African women. Obesity (Silver Spring, Md.). 17: 1298-300. PMID 19247282 DOI: 10.1038/oby.2009.40 |
0.531 |
|
| 2009 |
Abrahams MR, Anderson JA, Giorgi EE, Seoighe C, Mlisana K, Ping LH, Athreya GS, Treurnicht FK, Keele BF, Wood N, Salazar-Gonzalez JF, Bhattacharya T, Chu H, Hoffman I, Galvin S, et al. Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants. Journal of Virology. 83: 3556-67. PMID 19193811 DOI: 10.1128/Jvi.02132-08 |
0.587 |
|
| 2009 |
Delport W, Scheffler K, Seoighe C. Models of coding sequence evolution. Briefings in Bioinformatics. 10: 97-109. PMID 18971241 DOI: 10.1093/bib/bbn049 |
0.59 |
|
| 2009 |
Gray CM, Mlotshwa M, Riou C, Mathebula T, de Assis Rosa D, Mashishi T, Seoighe C, Ngandu N, van Loggerenberg F, Morris L, Mlisana K, Williamson C, Karim SA. Human immunodeficiency virus-specific gamma interferon enzyme-linked immunospot assay responses targeting specific regions of the proteome during primary subtype C infection are poor predictors of the course of viremia and set point. Journal of Virology. 83: 470-8. PMID 18945774 DOI: 10.1128/JVI.01678-08 |
0.562 |
|
| 2009 |
Abrahams MR, Anderson JA, Giorgi EE, Seoighe C, Mlisana K, Ping LH, Athreya GS, Treurnicht FK, Keele BF, Wood N, Salazar-Gonzalez JF, Bhattacharya T, Chu H, Hoffman I, Galvin S, et al. Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants (Journal of Virology (2009) 83, 8, (3556-3567)) Journal of Virology. 83: 6974. DOI: 10.1128/Jvi.00832-09 |
0.548 |
|
| 2008 |
Ngandu NK, Scheffler K, Moore P, Woodman Z, Martin D, Seoighe C. Extensive purifying selection acting on synonymous sites in HIV-1 Group M sequences. Virology Journal. 5: 160. PMID 19105834 DOI: 10.1186/1743-422X-5-160 |
0.601 |
|
| 2008 |
Delport W, Scheffler K, Seoighe C. Frequent toggling between alternative amino acids is driven by selection in HIV-1. Plos Pathogens. 4: e1000242. PMID 19096508 DOI: 10.1371/journal.ppat.1000242 |
0.589 |
|
| 2008 |
Nembaware V, Lupindo B, Schouest K, Spillane C, Scheffler K, Seoighe C. Genome-wide survey of allele-specific splicing in humans. Bmc Genomics. 9: 265. PMID 18518984 DOI: 10.1186/1471-2164-9-265 |
0.636 |
|
| 2008 |
Keele BF, Giorgi EE, Salazar-Gonzalez JF, Decker JM, Pham KT, Salazar MG, Sun C, Grayson T, Wang S, Li H, Wei X, Jiang C, Kirchherr JL, Gao F, Anderson JA, ... Seoighe C, et al. Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Proceedings of the National Academy of Sciences of the United States of America. 105: 7552-7. PMID 18490657 DOI: 10.1073/Pnas.0802203105 |
0.579 |
|
| 2008 |
Chopera DR, Woodman Z, Mlisana K, Mlotshwa M, Martin DP, Seoighe C, Treurnicht F, de Rosa DA, Hide W, Karim SA, Gray CM, Williamson C. Transmission of HIV-1 CTL escape variants provides HLA-mismatched recipients with a survival advantage. Plos Pathogens. 4: e1000033. PMID 18369479 DOI: 10.1371/journal.ppat.1000033 |
0.562 |
|
| 2008 |
Poulter GL, Rubin DL, Altman RB, Seoighe C. MScanner: a classifier for retrieving Medline citations. Bmc Bioinformatics. 9: 108. PMID 18284683 DOI: 10.1186/1471-2105-9-108 |
0.533 |
|
| 2007 |
Meier S, Seoighe C, Kwezi L, Irving H, Gehring C. Plant nucleotide cyclases: an increasingly complex and growing family. Plant Signaling & Behavior. 2: 536-9. PMID 19704552 DOI: 10.4161/psb.2.6.4788 |
0.543 |
|
| 2007 |
Schwegmann A, Guler R, Cutler AJ, Arendse B, Horsnell WG, Flemming A, Kottmann AH, Ryan G, Hide W, Leitges M, Seoighe C, Brombacher F. Protein kinase C delta is essential for optimal macrophage-mediated phagosomal containment of Listeria monocytogenes. Proceedings of the National Academy of Sciences of the United States of America. 104: 16251-6. PMID 17913887 DOI: 10.1073/pnas.0703496104 |
0.544 |
|
| 2007 |
Ngandu NG, Bredell H, Gray CM, Williamson C, Seoighe C. CTL response to HIV type 1 subtype C is poorly predicted by known epitope motifs. Aids Research and Human Retroviruses. 23: 1033-41. PMID 17725421 DOI: 10.1089/aid.2007.0024 |
0.568 |
|
| 2007 |
Seoighe C, Ketwaroo F, Pillay V, Scheffler K, Wood N, Duffet R, Zvelebil M, Martinson N, McIntyre J, Morris L, Hide W. A model of directional selection applied to the evolution of drug resistance in HIV-1. Molecular Biology and Evolution. 24: 1025-31. PMID 17272680 DOI: 10.1093/molbev/msm021 |
0.575 |
|
| 2007 |
Bredenkamp N, Seoighe C, Illing N. Comparative evolutionary analysis of the FoxG1 transcription factor from diverse vertebrates identifies conserved recognition sites for microRNA regulation. Development Genes and Evolution. 217: 227-33. PMID 17260156 DOI: 10.1007/S00427-006-0128-X |
0.611 |
|
| 2006 |
Seoighe C, Nembaware V, Scheffler K. Maximum likelihood inference of imprinting and allele-specific expression from EST data. Bioinformatics (Oxford, England). 22: 3032-9. PMID 17038342 DOI: 10.1093/bioinformatics/btl521 |
0.641 |
|
| 2006 |
Scheffler K, Martin DP, Seoighe C. Robust inference of positive selection from recombining coding sequences. Bioinformatics (Oxford, England). 22: 2493-9. PMID 16895925 DOI: 10.1093/bioinformatics/btl427 |
0.584 |
|
| 2005 |
Scheffler K, Seoighe C. A Bayesian model comparison approach to inferring positive selection. Molecular Biology and Evolution. 22: 2531-40. PMID 16120799 DOI: 10.1093/molbev/msi250 |
0.577 |
|
| 2005 |
Seoighe C, Gehring C, Hurst LD. Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction. Plos Genetics. 1: e13. PMID 16110339 DOI: 10.1371/journal.pgen.0010013 |
0.643 |
|
| 2005 |
Seoighe C, Scheffler K. Very low power to detect asymmetric divergence of duplicated genes Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3678: 142-152. DOI: 10.1007/11554714_13 |
0.566 |
|
| 2004 |
Nembaware V, Wolfe KH, Bettoni F, Kelso J, Seoighe C. Allele-specific transcript isoforms in human. Febs Letters. 577: 233-8. PMID 15527791 DOI: 10.1016/J.Febslet.2004.10.018 |
0.703 |
|
| 2004 |
Seoighe C, Gehring C. Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome. Trends in Genetics : Tig. 20: 461-4. PMID 15363896 DOI: 10.1016/j.tig.2004.07.008 |
0.64 |
|
| 2004 |
Grobler J, Gray CM, Rademeyer C, Seoighe C, Ramjee G, Karim SA, Morris L, Williamson C. 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. The Journal of Infectious Diseases. 190: 1355-9. PMID 15346349 DOI: 10.1086/423940 |
0.544 |
|
| 2004 |
Nembaware V, Seoighe C, Sayed M, Gehring C. A plant natriuretic peptide-like gene in the bacterial pathogen Xanthomonas axonopodis may induce hyper-hydration in the plant host: a hypothesis of molecular mimicry. Bmc Evolutionary Biology. 4: 10. PMID 15038836 DOI: 10.1186/1471-2148-4-10 |
0.582 |
|
| 2004 |
Swart EC, Hide WA, Seoighe C. FRAGS: estimation of coding sequence substitution rates from fragmentary data. Bmc Bioinformatics. 5: 8. PMID 15005802 DOI: 10.1186/1471-2105-5-8 |
0.587 |
|
| 2004 |
Mariotto G, Ceballos SF, Murphy S, Berdunov N, Seoighe C, Shvets IV. Self-assembled alkali and alkaline earth metal nanopatterns on Fe 3O4(001) Physical Review B - Condensed Matter and Materials Physics. 70: 035417-1-035417-8. DOI: 10.1103/Physrevb.70.035417 |
0.494 |
|
| 2004 |
Ceballos SF, Mariotto G, Jordan K, Murphy S, Seoighe C, Shvets IV. An atomic scale STM study of the Fe3O4(0 0 1) surface Surface Science. 548: 106-116. DOI: 10.1016/J.Susc.2003.10.041 |
0.508 |
|
| 2003 |
Seoighe C. Turning the clock back on ancient genome duplication. Current Opinion in Genetics & Development. 13: 636-43. PMID 14638327 DOI: 10.1016/j.gde.2003.10.005 |
0.615 |
|
| 2003 |
Seoighe C, Johnston CR, Shields DC. Significantly different patterns of amino acid replacement after gene duplication as compared to after speciation. Molecular Biology and Evolution. 20: 484-90. PMID 12654935 DOI: 10.1093/Molbev/Msg059 |
0.587 |
|
| 2002 |
Nembaware V, Crum K, Kelso J, Seoighe C. Impact of the presence of paralogs on sequence divergence in a set of mouse-human orthologs. Genome Research. 12: 1370-6. PMID 12213774 DOI: 10.1101/gr.270902 |
0.633 |
|
| 2002 |
Ludidi NN, Heazlewood JL, Seoighe C, Irving HR, Gehring CA. Expansin-like molecules: novel functions derived from common domains. Journal of Molecular Evolution. 54: 587-94. PMID 11965432 DOI: 10.1007/s00239-001-0055-4 |
0.554 |
|
| 2001 |
Hide W, Mizrahi V, Venkatesh B, Brenner S, Simpson A, Blatch G, Soodyall H, Denby K, Wingfield M, Wingfield B, van Helden P, Ramesar R, Dorrington R, Kelso J, Oppon E, ... Seoighe C, et al. A platform for genomics in South Africa. South African Medical Journal = Suid-Afrikaanse Tydskrif Vir Geneeskunde. 91: 1006-7. PMID 11845589 |
0.576 |
|
| 2001 |
Hide WA, Babenko VN, van Heusden PA, Seoighe C, Kelso JF. The contribution of exon-skipping events on chromosome 22 to protein coding diversity. Genome Research. 11: 1848-53. PMID 11691849 DOI: 10.1101/gr.188001 |
0.656 |
|
| 2000 |
Seoighe C, Federspiel N, Jones T, Hansen N, Bivolarovic V, Surzycki R, Tamse R, Komp C, Huizar L, Davis RW, Scherer S, Tait E, Shaw DJ, Harris D, Murphy L, et al. Prevalence of small inversions in yeast gene order evolution. Proceedings of the National Academy of Sciences of the United States of America. 97: 14433-7. PMID 11087826 DOI: 10.1073/Pnas.240462997 |
0.723 |
|
| 2000 |
Wolfe K, Seoighe C. Genome duplication and gene order evolution in ascomycetes Biochemical Society Transactions. 28: A23-A23. DOI: 10.1042/bst028a023b |
0.71 |
|
| 1999 |
Seoighe C, Wolfe KH. Updated map of duplicated regions in the yeast genome. Gene. 238: 253-61. PMID 10571001 DOI: 10.1016/S0378-1119(99)00319-4 |
0.702 |
|
| 1999 |
Seoighe C, Wolfe KH. Yeast genome evolution in the post-genome era. Current Opinion in Microbiology. 2: 548-54. PMID 10508730 DOI: 10.1016/S1369-5274(99)00015-6 |
0.731 |
|
| 1999 |
Bradnam KR, Seoighe C, Sharp PM, Wolfe KH. G+C content variation along and among Saccharomyces cerevisiae chromosomes. Molecular Biology and Evolution. 16: 666-75. PMID 10335660 DOI: 10.1093/Oxfordjournals.Molbev.A026149 |
0.72 |
|
| 1999 |
Seoighe C, Naumann J, Shvets IV. Studies of surface structures on single crystalline magnetite (100) Surface Science. 440: 116-124. DOI: 10.1016/S0039-6028(99)00777-3 |
0.51 |
|
| 1998 |
Keogh RS, Seoighe C, Wolfe KH. Evolution of gene order and chromosome number in Saccharomyces, Kluyveromyces and related fungi. Yeast (Chichester, England). 14: 443-57. PMID 9559552 DOI: 10.1002/(Sici)1097-0061(19980330)14:5<443::Aid-Yea243>3.0.Co;2-L |
0.713 |
|
| 1998 |
Seoighe C, Wolfe KH. Extent of genomic rearrangement after genome duplication in yeast. Proceedings of the National Academy of Sciences of the United States of America. 95: 4447-52. PMID 9539757 DOI: 10.1073/Pnas.95.8.4447 |
0.702 |
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