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Wyświetlanie 1-8 z 8
Tytuł :
Synonymous Site-to-Site Substitution Rate Variation Dramatically Inflates False Positive Rates of Selection Analyses: Ignore at Your Own Peril.
Autorzy :
Wisotsky SR; Bioinformatics Research Center, North Carolina State University, Raleigh, NC.; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Kosakovsky Pond SL; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Shank SD; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Muse SV; Bioinformatics Research Center, North Carolina State University, Raleigh, NC.; Department of Statistics, North Carolina State University, Raleigh, NC.
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Źródło :
Molecular biology and evolution [Mol Biol Evol] 2020 Aug 01; Vol. 37 (8), pp. 2430-2439.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural
Czasopismo naukowe
Tytuł :
Phyloanatomic characterization of the distinct T cell and monocyte contributions to the peripheral blood HIV population within the host.
Autorzy :
RifeMagalis B; Department of Pathology, Immunology, and Laboratory Medicine, Emerging Pathogens Institute, University of Florida, Gainesville, FL 32601, USA.
Strickland SL; Department of Pathology, Immunology, and Laboratory Medicine, Emerging Pathogens Institute, University of Florida, Gainesville, FL 32601, USA.
Shank SD; Department of Biology, Temple University, Philadelphia, PA 19122, USA.
Autissier P; Department of Biology, Boston College, Chestnut Hill, MA 02467, USA.
Schuetz A; Department of Retrovirology, Armed Forces Research Institute of Medical Sciences - United States Component, Bangkok 10400, Thailand.; SEARCH, Thai Red Cross AIDS Research Center, Bangkok 10330, Thailand.
Sithinamsuwan P; U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Rockville, MD 20850, USA.
Lerdlum S; Division of Neurology, Department of Medicine, Phramongkutklao Hospital, Bangkok 10400, Thailand.
Fletcher JLK; Faculty of Medicine, Department of Radiology, Chulalongkorn University, Bangkok 10330, Thailand.
de Souza M; Faculty of Medicine, Department of Radiology, Chulalongkorn University, Bangkok 10330, Thailand.
Ananworanich J; Department of Retrovirology, Armed Forces Research Institute of Medical Sciences - United States Component, Bangkok 10400, Thailand.; SEARCH, Thai Red Cross AIDS Research Center, Bangkok 10330, Thailand.; Faculty of Medicine, Department of Radiology, Chulalongkorn University, Bangkok 10330, Thailand.
Valcour V; Department of Neurology, University of California San Francisco, San Francisco, CA 94143, USA.
Williams KC; Department of Biology, Boston College, Chestnut Hill, MA 02467, USA.
Kosakovsky Pond SL; Department of Biology, Temple University, Philadelphia, PA 19122, USA.
RattoKim S; Department of Retrovirology, Armed Forces Research Institute of Medical Sciences - United States Component, Bangkok 10400, Thailand.; SEARCH, Thai Red Cross AIDS Research Center, Bangkok 10330, Thailand.
Salemi M; Department of Pathology, Immunology, and Laboratory Medicine, Emerging Pathogens Institute, University of Florida, Gainesville, FL 32601, USA.
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Corporate Authors :
Search007 Study Group
Źródło :
Virus evolution [Virus Evol] 2020 Apr 27; Vol. 6 (1), pp. veaa005. Date of Electronic Publication: 2020 Apr 27 (Print Publication: 2020).
Typ publikacji :
Journal Article
Czasopismo naukowe
Tytuł :
Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates.
Autorzy :
Northover DE; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA.
Shank SD; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA.
Liberles DA; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA. .; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA. .
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Źródło :
BMC evolutionary biology [BMC Evol Biol] 2020 Feb 11; Vol. 20 (1), pp. 24. Date of Electronic Publication: 2020 Feb 11.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Evolution, Molecular*
Genetic Speciation*
Chordata/*classification
Chordata/*genetics
Genetic Variation/*physiology
Animals ; Biological Evolution ; Cetacea/classification ; Cetacea/genetics ; Gene Duplication/physiology ; Genes, Duplicate ; Genome ; Genomics ; Phylogeny
Czasopismo naukowe
Tytuł :
HyPhy 2.5-A Customizable Platform for Evolutionary Hypothesis Testing Using Phylogenies.
Autorzy :
Kosakovsky Pond SL; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Poon AFY; Pathology and Laboratory Medicine, Western University, London, ON, Canada.
Velazquez R; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Weaver S; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Hepler NL; 10× Genomics, Pleasanton, CA.
Murrell B; Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Stockholm, Sweden.
Shank SD; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Magalis BR; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Bouvier D; Biochemistry and Molecular Biology, The Pennsylvania State University, State College, PA.
Nekrutenko A; Biochemistry and Molecular Biology, The Pennsylvania State University, State College, PA.
Wisotsky S; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.; Department of Statistics and Bioinformatics Research Center, North Carolina State University, Raleigh, NC.
Spielman SJ; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.; Rowan University, Glassboro, NJ.
Frost SDW; Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom.; The Alan Turing Institute, London, United Kingdom.
Muse SV; Department of Statistics and Bioinformatics Research Center, North Carolina State University, Raleigh, NC.
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Źródło :
Molecular biology and evolution [Mol Biol Evol] 2020 Jan 01; Vol. 37 (1), pp. 295-299.
Typ publikacji :
Evaluation Study; Journal Article
MeSH Terms :
Genetic Techniques*
Phylogeny*
Software*
Czasopismo naukowe
Tytuł :
Evolution of Viral Genomes: Interplay Between Selection, Recombination, and Other Forces.
Autorzy :
Spielman SJ; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA.
Weaver S; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA.
Shank SD; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA.
Magalis BR; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA.
Li M; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA.
Kosakovsky Pond SL; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA, USA. .
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Źródło :
Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2019; Vol. 1910, pp. 427-468.
Typ publikacji :
Journal Article
MeSH Terms :
Evolution, Molecular*
Genome, Viral*
Genomics*/methods
Viruses/*genetics
Codon ; Computational Biology/methods ; Genetic Variation ; Phylogeny ; Recombination, Genetic ; Selection, Genetic ; Software ; Viruses/classification
Czasopismo naukowe
Tytuł :
phylotree.js - a JavaScript library for application development and interactive data visualization in phylogenetics.
Autorzy :
Shank SD; Department of Biology and Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, 19122, USA. .
Weaver S; Department of Biology and Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, 19122, USA.
Kosakovsky Pond SL; Department of Biology and Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, 19122, USA.
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Źródło :
BMC bioinformatics [BMC Bioinformatics] 2018 Jul 25; Vol. 19 (1), pp. 276. Date of Electronic Publication: 2018 Jul 25.
Typ publikacji :
Journal Article
MeSH Terms :
Phylogeny*
Software*
Computational Biology/*methods
Sequence Analysis, DNA ; User-Computer Interface
Czasopismo naukowe
Tytuł :
Datamonkey 2.0: A Modern Web Application for Characterizing Selective and Other Evolutionary Processes.
Autorzy :
Weaver S; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Shank SD; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Spielman SJ; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Li M; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
Muse SV; Department of Statistics, North Carolina State University, Raleigh, NC.
Kosakovsky Pond SL; Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA.
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Źródło :
Molecular biology and evolution [Mol Biol Evol] 2018 Mar 01; Vol. 35 (3), pp. 773-777.
Typ publikacji :
Journal Article
Czasopismo naukowe
Tytuł :
The Adaptive Evolution Database (TAED): A New Release of a Database of Phylogenetically Indexed Gene Families from Chordates.
Autorzy :
Hermansen RA; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA.; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA.
Oswald BP; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA.; IBEST Computational Resources Core, University of Idaho, Moscow, ID, 83844, USA.
Knight S; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA.; Supercomputer Systems Group, National Center for Atmospheric Research, Cheyenne, WY, 82009, USA.
Shank SD; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA.
Northover D; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA.
Korunes KL; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA.; Department of Biology, Duke University, Durham, NC, 27708, USA.
Michel SN; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA.; College of Biological Sciences, University of Minnesota, Saint Paul, MN, 55108, USA.
Liberles DA; Department of Biology and Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA, 19122, USA. .; Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA. .
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Źródło :
Journal of molecular evolution [J Mol Evol] 2017 Aug; Vol. 85 (1-2), pp. 46-56. Date of Electronic Publication: 2017 Aug 09.
Typ publikacji :
Journal Article
MeSH Terms :
Databases, Genetic*
Evolution, Molecular*
Multigene Family*
Chordata/*genetics
Genomics/*methods
Animals ; Phylogeny ; Sequence Analysis, DNA/methods ; Software
Czasopismo naukowe
    Wyświetlanie 1-8 z 8

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