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Kenneth Wolfe
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Research Profile (preview)
Phenomena
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Network (preview)
7
Byrne, Kevin
7
Seoighe, Cathal
7
Sharp, Paul
5
Hokamp, Karsten
5
Conant, Gavin
4
Sémon, Marie
4
Scannell, Devin
3
Lloyd, Andrew
3
McLysaght, Aoife
3
Cusack, Brian
3
Fares, Mario
3
Huminiecki, Lukasz
3
Wong, Simon
3
blanc, guillaume
2
Woolfit, Megan
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Geonetwork of Kenneth Wolfe (preview)
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All Publications
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2009: Frank A Carolin; Wolfe Kenneth H
Evolutionary capture of viral and plasmid DNA by yeast nuclear chromosomes.
Eukaryotic cell 2009;8(10):1521-31.
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2009: Gordon Jonathan L; Byrne Kevin P; Wolfe Kenneth H
Additions, losses, and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome.
PLoS genetics 2009;5(5):e1000485.
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2009: Gallagher Jennifer E G; Babiarz Joshua E; Teytelman Leonid; Wolfe Kenneth H; Rine Jasper
Elaboration, diversification and regulation of the Sir1 family of silencing proteins in Saccharomyces.
Genetics 2009;181(4):1477-91.
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2009: Williams Tom A; Wolfe Kenneth H; Fares Mario A
No rosetta stone for a sense-antisense origin of aminoacyl tRNA synthetase classes.
Molecular biology and evolution 2009;26(2):445-50.
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2008: Conant Gavin C; Wolfe Kenneth H
Probabilistic cross-species inference of orthologous genomic regions created by whole-genome duplication in yeast.
Genetics 2008;179(3):1681-92.
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2008: Sémon Marie; Wolfe Kenneth H
Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(24):8333-8.
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2008: Gordon Jonathan L; Wolfe Kenneth H
Recent allopolyploid origin of Zygosaccharomyces rouxii strain ATCC 42981.
Yeast (Chichester, England) 2008;25(6):449-56.
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2008: Conant Gavin C; Wolfe Kenneth H
GenomeVx: simple web-based creation of editable circular chromosome maps.
Bioinformatics (Oxford, England) 2008;24(6):861-2.
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2008: Scannell Devin R; Wolfe Kenneth H
A burst of protein sequence evolution and a prolonged period of asymmetric evolution follow gene duplication in yeast.
Genome research 2008;18(1):137-47.
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2008: Khaldi Nora; Wolfe Kenneth H
Elusive origins of the extra genes in Aspergillus oryzae.
PloS one 2008;3(8):e3036.
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2007: Sémon Marie; Wolfe Kenneth H
Consequences of genome duplication.
Current opinion in genetics & development 2007;17(6):505-12.
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2007: Scannell Devin R; Butler Geraldine; Wolfe Kenneth H
Yeast genome evolution--the origin of the species.
Yeast (Chichester, England) 2007;24(11):929-42.
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2007: Cusack Brian P; Wolfe Kenneth H
When gene marriages don't work out: divorce by subfunctionalization.
Trends in genetics : TIG 2007;23(6):270-2.
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2007: Scannell Devin R; Frank A Carolin; Conant Gavin C; Byrne Kevin P; Woolfit Megan; Wolfe Kenneth H
Independent sorting-out of thousands of duplicated gene pairs in two yeast species descended from a whole-genome duplication.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(20):8397-402.
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2007: Woolfit Megan; Rozpedowska Elzbieta; Piskur Jure; Wolfe Kenneth H
Genome survey sequencing of the wine spoilage yeast Dekkera (Brettanomyces) bruxellensis.
Eukaryotic cell 2007;6(4):721-33.
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2007: Sémon Marie; Wolfe Kenneth H
Reciprocal gene loss between Tetraodon and zebrafish after whole genome duplication in their ancestor.
Trends in genetics : TIG 2007;23(3):108-12.
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2007: Sémon Marie; Wolfe Kenneth H
Rearrangement rate following the whole-genome duplication in teleosts.
Molecular biology and evolution 2007;24(3):860-7.
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2007: Byrne Kevin P; Wolfe Kenneth H
Consistent patterns of rate asymmetry and gene loss indicate widespread neofunctionalization of yeast genes after whole-genome duplication.
Genetics 2007;175(3):1341-50.
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2007: Cusack Brian P; Wolfe Kenneth H
Not born equal: increased rate asymmetry in relocated and retrotransposed rodent gene duplicates.
Molecular biology and evolution 2007;24(3):679-86.
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2007: Conant Gavin C; Wolfe Kenneth H
Increased glycolytic flux as an outcome of whole-genome duplication in yeast.
Molecular systems biology 2007;3():129.
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2006: Drea Sinéad C; Lao Nga T; Wolfe Kenneth H; Kavanagh Tony A
Gene duplication, exon gain and neofunctionalization of OEP16-related genes in land plants.
The Plant journal : for cell and molecular biology 2006;46(5):723-35.
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2006: Conant Gavin C; Wolfe Kenneth H
Functional partitioning of yeast co-expression networks after genome duplication.
PLoS biology 2006;4(4):e109.
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2006: Scannell Devin R; Byrne Kevin P; Gordon Jonathan L; Wong Simon; Wolfe Kenneth H
Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts.
Nature 2006;440(7082):341-5.
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2006: Wolfe Kenneth H
Comparative genomics and genome evolution in yeasts.
Philosophical transactions of the Royal Society of London. Series B, Biological sciences 2006;361(1467):403-12.
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2006: Fares Mario A; Byrne Kevin P; Wolfe Kenneth H
Rate asymmetry after genome duplication causes substantial long-branch attraction artifacts in the phylogeny of Saccharomyces species.
Molecular biology and evolution 2006;23(2):245-53.
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2006: Byrne Kevin P; Wolfe Kenneth H
Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser.
Nucleic acids research 2006;34(Database issue):D452-5.
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2005: Cusack Brian P; Wolfe Kenneth H
Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons.
Molecular biology and evolution 2005;22(11):2198-208.
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2005: Byrne Kevin P; Wolfe Kenneth H
The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species.
Genome research 2005;15(10):1456-61.
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2005: Wong Simon; Wolfe Kenneth H
Birth of a metabolic gene cluster in yeast by adaptive gene relocation.
Nature genetics 2005;37(7):777-82.
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2005: Singer Gregory A C; Lloyd Andrew T; Huminiecki Lukasz B; Wolfe Kenneth H
Clusters of co-expressed genes in mammalian genomes are conserved by natural selection.
Molecular biology and evolution 2005;22(3):767-75.
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2004: Nembaware Victoria; Wolfe Kenneth H; Bettoni Fabiana; Kelso Janet; Seoighe Cathal
Allele-specific transcript isoforms in human.
FEBS letters 2004;577(1-2):233-8.
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2004: Huminiecki Lukasz; Wolfe Kenneth H
Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse.
Genome research 2004;14(10A):1870-9.
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2004: Coghlan Avril; Wolfe Kenneth H
Origins of recently gained introns in Caenorhabditis.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(31):11362-7.
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2004: Hokamp Karsten; Wolfe Kenneth H
PubCrawler: keeping up comfortably with PubMed and GenBank.
Nucleic acids research 2004;32(Web Server issue):W16-9.
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2004: Blanc Guillaume; Wolfe Kenneth H
Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes.
The Plant cell 2004;16(7):1667-78.
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2004: Blanc Guillaume; Wolfe Kenneth H
Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution.
The Plant cell 2004;16(7):1679-91.
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2003: Fares Mario A; Wolfe Kenneth H
Positive selection and subfunctionalization of duplicated CCT chaperonin subunits.
Molecular biology and evolution 2003;20(10):1588-97.
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2003: Huminiecki Lukasz; Lloyd Andrew T; Wolfe Kenneth H
Congruence of tissue expression profiles from Gene Expression Atlas, SAGEmap and TissueInfo databases.
BMC genomics 2003;4(1):31.
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2003: Wolfe Kenneth H; Li Wen-Hsiung
Molecular evolution meets the genomics revolution.
Nature genetics 2003;33 Suppl():255-65.
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2003: Hokamp Karsten; Shields Denis C; Wolfe Kenneth H; Caffrey Daniel R
Wrapping up BLAST and other applications for use on Unix clusters.
Bioinformatics (Oxford, England) 2003;19(3):441-2.
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2003: Blanc Guillaume; Hokamp Karsten; Wolfe Kenneth H
A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome.
Genome research 2003;13(2):137-44.
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2003: Hokamp Karsten; McLysaght Aoife; Wolfe Kenneth H
The 2R hypothesis and the human genome sequence.
Journal of structural and functional genomics 2003;3(1-4):95-110.
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2003: Wong Simon; Fares Mario A; Zimmermann Wolfgang; Butler Geraldine; Wolfe Kenneth H
Evidence from comparative genomics for a complete sexual cycle in the 'asexual' pathogenic yeast Candida glabrata.
Genome biology 2003;4(2):R10.
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2002: Perry Antoinette S; Wolfe Kenneth H
Nucleotide substitution rates in legume chloroplast DNA depend on the presence of the inverted repeat.
Journal of molecular evolution 2002;55(5):501-8.
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2002: Perry Antoinette S; Brennan Sinéad; Murphy David J; Kavanagh Tony A; Wolfe Kenneth H
Evolutionary re-organisation of a large operon in adzuki bean chloroplast DNA caused by inverted repeat movement.
DNA research : an international journal for rapid publication of reports on genes and genomes 2002;9(5):157-62.
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2002: Wong Simon; Butler Geraldine; Wolfe Kenneth H
Gene order evolution and paleopolyploidy in hemiascomycete yeasts.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(14):9272-7.
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2002: Coghlan Avril; Wolfe Kenneth H
Fourfold faster rate of genome rearrangement in nematodes than in Drosophila.
Genome research 2002;12(6):857-67.
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2002: McLysaght Aoife; Hokamp Karsten; Wolfe Kenneth H
Extensive genomic duplication during early chordate evolution.
Nature genetics 2002;31(2):200-4.
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2001: Wolfe K H
Yesterday's polyploids and the mystery of diploidization.
Nature reviews. Genetics 2001;2(5):333-41.
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2001: Millen R S; Olmstead R G; Adams K L; Palmer J D; Lao N T; Heggie L; Kavanagh T A; Hibberd J M; Gray J C; Morden C W; Calie P J; Jermiin L S; Wolfe K H
Many parallel losses of infA from chloroplast DNA during angiosperm evolution with multiple independent transfers to the nucleus.
The Plant cell 2001;13(3):645-58.
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2000: Seoighe C; Federspiel N; Jones T; Hansen N; Bivolarovic V; Surzycki R; Tamse R; Komp C; Huizar L; Davis R W; Scherer S; Tait E; Shaw D J; Harris D; Murphy L; Oliver K; Taylor K; Rajandream M A; Barrell B G; Wolfe K H
Prevalence of small inversions in yeast gene order evolution.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(26):14433-7.
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2000: Coghlan A; Wolfe K H
Relationship of codon bias to mRNA concentration and protein length in Saccharomyces cerevisiae.
Yeast (Chichester, England) 2000;16(12):1131-45.
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2000: McLysaght A; Enright A J; Skrabanek L; Wolfe K H
Estimation of synteny conservation and genome compaction between pufferfish (Fugu) and human.
Yeast (Chichester, England) 2000;17(1):22-36.
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1999: Seoighe C; Wolfe K H
Yeast genome evolution in the post-genome era.
Current opinion in microbiology 1999;2(5):548-54.
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1999: Seoighe C; Wolfe K H
Updated map of duplicated regions in the yeast genome.
Gene 1999;238(1):253-61.
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1999: Bradnam K R; Seoighe C; Sharp P M; Wolfe K H
G+C content variation along and among Saccharomyces cerevisiae chromosomes.
Molecular biology and evolution 1999;16(5):666-75.
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1999: Lafay B; Lloyd A T; McLean M J; Devine K M; Sharp P M; Wolfe K H
Proteome composition and codon usage in spirochaetes: species-specific and DNA strand-specific mutational biases.
Nucleic acids research 1999;27(7):1642-9.
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1998: Skrabanek L; Wolfe K H
Eukaryote genome duplication - where's the evidence?
Current opinion in genetics & development 1998;8(6):694-700.
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1998: McLean M J; Wolfe K H; Devine K M
Base composition skews, replication orientation, and gene orientation in 12 prokaryote genomes.
Journal of molecular evolution 1998;47(6):691-6.
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1998: Lohan A J; Wolfe K H
A subset of conserved tRNA genes in plastid DNA of nongreen plants.
Genetics 1998;150(1):425-33.
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1998: Seoighe C; Wolfe K H
Extent of genomic rearrangement after genome duplication in yeast.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(8):4447-52.
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1998: Keogh R S; Seoighe C; Wolfe K H
Evolution of gene order and chromosome number in Saccharomyces, Kluyveromyces and related fungi.
Yeast (Chichester, England) 1998;14(5):443-57.
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1997: Wolfe K; Butler G
Yeast's clickable chromosomes and other genome browsers.
Trends in genetics : TIG 1997;13(6):246-7.
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1997: Wolfe K H; Shields D C
Molecular evidence for an ancient duplication of the entire yeast genome.
Nature 1997;387(6634):708-13.
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1996: Parle-McDermott A G; Hand N J; Goulding S E; Wolfe K H
Sequence of 29 kb around the PDR10 locus on the right arm of Saccharomyces cerevisiae chromosome XV: similarity to part of chromosome I.
Yeast (Chichester, England) 1996;12(10B Suppl):999-1004.
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1995: Devine K M; Wolfe K
Bacterial genomes: a TIGR in the tank.
Trends in genetics : TIG 1995;11(11):429-31.
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1994: Wolfe K H; Lohan A J
Sequence around the centromere of Saccharomyces cerevisiae chromosome II: similarity of CEN2 to CEN4.
Yeast (Chichester, England) 1994;10 Suppl A():S41-6.
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1993: Wolfe K H; Sharp P M
Mammalian gene evolution: nucleotide sequence divergence between mouse and rat.
Journal of molecular evolution 1993;37(4):441-56.
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1993: Sharp P M; Wolfe K H
Identification of a Candida utilis gene encoding ribosomal protein L7: evidence for two divergent subclasses of the eukaryotic ribosomal protein L7 family.
Nucleic acids research 1993;21(15):3577.
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1989: Sharp P M; Shields D C; Wolfe K H; Li W H
Chromosomal location and evolutionary rate variation in enterobacterial genes.
Science (New York, N.Y.) 1989;246(4931):808-10.
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1989: Wolfe K H; Sharp P M; Li W H
Mutation rates differ among regions of the mammalian genome.
Nature 1989;337(6204):283-5.
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1988: Lu Q; Wolfe K H; McConnell D J
Molecular cloning of multiple bovine aspartyl protease genes.
Gene 1988;71(1):135-46.
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1988: Sharp P M; Cowe E; Higgins D G; Shields D C; Wolfe K H; Wright F
Codon usage patterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity.
Nucleic acids research 1988;16(17):8207-11.
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1988: Wolfe K H; Sharp P M
Identification of functional open reading frames in chloroplast genomes.
Gene 1988;66(2):215-22.
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