Detecting phylogenetic signal in mutualistic interaction networks using a Markov process model
Minoarivelo, H. O, Hui, C, Terblanche, J. S, Kosakovsky Pond, S. L, Scheffler, K
Published in Oikos (01.10.2014)
Published in Oikos (01.10.2014)
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Journal Article
Detection of Mammalian Virulence Determinants in Highly Pathogenic Avian Influenza H5N1 Viruses: Multivariate Analysis of Published Data
LYCETT, S. J, WARD, M. J, LEWIS, F. I, POON, A. F. Y, KOSAKOVSKY POND, S. L, LEIGH BROWN, A. J
Published in Journal of Virology (01.10.2009)
Published in Journal of Virology (01.10.2009)
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Journal Article
Maintenance of Nef-Mediated Modulation of Major Histocompatibility Complex Class I and CD4 after Sexual Transmission of Human Immunodeficiency Virus Type 1
NOVIELLO, C. M, KOSAKOVSKY POND, S. L, LEWIS, M. J, RICHMAN, D. D, PILLAI, S. K, YANG, O. O, LITTLE, S. J, SMITH, D. M, GUATELLI, J. C
Published in Journal of Virology (01.05.2007)
Published in Journal of Virology (01.05.2007)
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Journal Article
Estimating selection pressures on HIV-1 using phylogenetic likelihood models
Kosakovsky Pond, S. L., Poon, A. F. Y., Zárate, S., Smith, D. M., Little, S. J., Pillai, S. K., Ellis, R. J., Wong, J. K., Leigh Brown, A. J., Richman, D. D., Frost, S. D. W.
Published in Statistics in medicine (15.10.2008)
Published in Statistics in medicine (15.10.2008)
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Journal Article
Inconsistencies in Estimating the Age of HIV-1 Subtypes Due to Heterotachy
Wertheim, Joel O., Fourment, Mathieu, Kosakovsky Pond, Sergei L.
Published in Molecular biology and evolution (01.02.2012)
Published in Molecular biology and evolution (01.02.2012)
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Journal Article
Phylogenetic analysis of population-based and deep sequencing data to identify coevolving sites in the nef gene of HIV-1
Poon, Art F Y, Swenson, Luke C, Dong, Winnie W Y, Deng, Wenjie, Kosakovsky Pond, Sergei L, Brumme, Zabrina L, Mullins, James I, Richman, Douglas D, Harrigan, P Richard, Frost, Simon D W
Published in Molecular biology and evolution (01.04.2010)
Published in Molecular biology and evolution (01.04.2010)
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Journal Article
Statistics and Truth in Phylogenomics
Kumar, Sudhir, Filipski, Alan J., Battistuzzi, Fabia U., Kosakovsky Pond, Sergei L., Tamura, Koichiro
Published in Molecular biology and evolution (01.02.2012)
Published in Molecular biology and evolution (01.02.2012)
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Journal Article
Evolutionary Fingerprinting of Genes
Kosakovsky Pond, Sergei L., Scheffler, Konrad, Gravenor, Michael B., Poon, Art F.Y., Frost, Simon D.W.
Published in Molecular biology and evolution (01.03.2010)
Published in Molecular biology and evolution (01.03.2010)
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Journal Article
Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function
Martin, Darren P., Lytras, Spyros, Lucaci, Alexander G., Maier, Wolfgang, Grüning, Björn, Shank, Stephen D., Weaver, Steven, MacLean, Oscar A., Orton, Richard J., Lemey, Philippe, Boni, Maciej F., Tegally, Houriiyah, Harkins, Gordon W., Scheepers, Cathrine, Bhiman, Jinal N., Everatt, Josie, Amoako, Daniel G., San, James Emmanuel, Giandhari, Jennifer, Sigal, Alex, Williamson, Carolyn, Hsiao, Nei-yuan, von Gottberg, Anne, De Klerk, Arne, Shafer, Robert W., Robertson, David L., Wilkinson, Robert J., Sewell, B. Trevor, Lessells, Richard, Nekrutenko, Anton, Greaney, Allison J., Starr, Tyler N., Bloom, Jesse D., Murrell, Ben, Wilkinson, Eduan, Gupta, Ravindra K., de Oliveira, Tulio, Kosakovsky Pond, Sergei L.
Published in Molecular biology and evolution (2022)
Published in Molecular biology and evolution (2022)
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Journal Article
Evolution of the interferon alpha gene family in eutherian mammals
Woelk, Christopher H., Frost, Simon D.W., Richman, Douglas D., Higley, Prentice E., Kosakovsky Pond, Sergei L.
Published in Gene (01.08.2007)
Published in Gene (01.08.2007)
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Journal Article
Codon volatility does not reflect selective pressure on the HIV-1 genome
Pillai, Satish K., Kosakovsky Pond, Sergei L., Woelk, Christopher H., Richman, Douglas D., Smith, Davey M.
Published in Virology (New York, N.Y.) (05.06.2005)
Published in Virology (New York, N.Y.) (05.06.2005)
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Journal Article
Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function
Martin, Darren P, Lytras, Spyros, Lucaci, Alexander G, Maier, Wolfgang, Grüning, Björn, Shank, Stephen D, Weaver, Steven, MacLean, Oscar A, Orton, Richard J, Lemey, Philippe, Boni, Maciej F, Tegally, Houriiyah, Harkins, Gordon, Scheepers, Cathrine, Bhiman, Jinal N, Everatt, Josie, Amoako, Daniel G, San, James Emmanuel, Giandhari, Jennifer, Sigal, Alex, Williamson, Carolyn, Hsiao, Nei-Yuan, von Gottberg, Anne, De Klerk, Arne, Shafer, Robert W, Robertson, David L, Wilkinson, Robert J, Sewell, B Trevor, Lessells, Richard, Nekrutenko, Anton, Greaney, Allison J, Starr, Tyler N, Bloom, Jesse D, Murrell, Ben, Wilkinson, Eduan, Gupta, Ravindra K, de Oliveira, Tulio, Kosakovsky Pond, Sergei L
Published in bioRxiv : the preprint server for biology (18.01.2022)
Published in bioRxiv : the preprint server for biology (18.01.2022)
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The emergence and ongoing convergent evolution of the N501Y lineages coincides with a major global shift in the SARS-CoV-2 selective landscape
Martin, Darren P, Weaver, Steven, Tegally, Houryiah, San, Emmanuel James, Shank, Stephen D, Wilkinson, Eduan, Lucaci, Alexander G, Giandhari, Jennifer, Naidoo, Sureshnee, Pillay, Yeshnee, Singh, Lavanya, Lessells, Richard J, Gupta, Ravindra K, Wertheim, Joel O, Nekturenko, Anton, Murrell, Ben, Harkins, Gordon W, Lemey, Philippe, MacLean, Oscar A, Robertson, David L, de Oliveira, Tulio, Kosakovsky Pond, Sergei L
Published in medRxiv : the preprint server for health sciences (25.07.2021)
Published in medRxiv : the preprint server for health sciences (25.07.2021)
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