Tae Kun Seo

Summary

Affiliation: North Carolina State University
Country: USA

Publications

  1. pmc Estimation of effective population size of HIV-1 within a host: a pseudomaximum-likelihood approach
    Tae Kun Seo
    Department of Biosystems Science, The Graduate University for Advanced Studies, Hayama, Kanagawa, 240 0193, Japan
    Genetics 160:1283-93. 2002
  2. ncbi request reprint Estimating absolute rates of synonymous and nonsynonymous nucleotide substitution in order to characterize natural selection and date species divergences
    Tae Kun Seo
    Bioinformatics Research Center, Box 7566, North Carolina State University, NC, USA
    Mol Biol Evol 21:1201-13. 2004
  3. ncbi request reprint A viral sampling design for testing the molecular clock and for estimating evolutionary rates and divergence times
    Tae Kun Seo
    Department of Biosystems Science, The Graduate University for Advanced Studies, Hayama, Kanagawa, 240 0193, Japan
    Bioinformatics 18:115-23. 2002
  4. pmc Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data
    Tae Kun Seo
    Bioinformatics Research Center, North Carolina State University, Box 7566, Raleigh, NC 27695 7566, USA
    Proc Natl Acad Sci U S A 102:4436-41. 2005
  5. doi request reprint Rates of nucleotide substitution in Cornaceae (Cornales)-Pattern of variation and underlying causal factors
    Qiu Yun Jenny Xiang
    Department of Plant Biology, North Carolina State University, Gardner Hall 2115, Campus Box 7612, Raleigh, NC 27695, USA
    Mol Phylogenet Evol 49:327-42. 2008
  6. doi request reprint Calculating bootstrap probabilities of phylogeny using multilocus sequence data
    Tae Kun Seo
    Professional Programme for Agricultural Bioinformatics, University of Tokyo, 1 1 1 Yayoi Bunkyo Ku, Tokyo 113 8657, Japan
    Mol Biol Evol 25:960-71. 2008
  7. doi request reprint Synonymous substitutions substantially improve evolutionary inference from highly diverged proteins
    Tae Kun Seo
    Professional Programme for Agricultural Bioinformatics, Graduate School of Agricultural and Life Sciences, University of Tokyo, Tokyo, Japan
    Syst Biol 57:367-77. 2008

Detail Information

Publications7

  1. pmc Estimation of effective population size of HIV-1 within a host: a pseudomaximum-likelihood approach
    Tae Kun Seo
    Department of Biosystems Science, The Graduate University for Advanced Studies, Hayama, Kanagawa, 240 0193, Japan
    Genetics 160:1283-93. 2002
    ..52 x 10(-5) to 5.02 x 10(-5). Our results indicate that effective viral population size and evolutionary rate per year are negatively correlated among HIV-1 patients...
  2. ncbi request reprint Estimating absolute rates of synonymous and nonsynonymous nucleotide substitution in order to characterize natural selection and date species divergences
    Tae Kun Seo
    Bioinformatics Research Center, Box 7566, North Carolina State University, NC, USA
    Mol Biol Evol 21:1201-13. 2004
    ..Our analysis of these data also suggests that rates have been positively correlated...
  3. ncbi request reprint A viral sampling design for testing the molecular clock and for estimating evolutionary rates and divergence times
    Tae Kun Seo
    Department of Biosystems Science, The Graduate University for Advanced Studies, Hayama, Kanagawa, 240 0193, Japan
    Bioinformatics 18:115-23. 2002
    ..Variation in isolation times can be intentionally adjusted to increase the power of hypothesis tests and to reduce the uncertainty of evolutionary parameter estimates, but this fact has received little previous attention...
  4. pmc Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data
    Tae Kun Seo
    Bioinformatics Research Center, North Carolina State University, Box 7566, Raleigh, NC 27695 7566, USA
    Proc Natl Acad Sci U S A 102:4436-41. 2005
    ..We discuss the applicability of the two-stage bootstrap idea to the Kishino-Hasegawa test and the Shimodaira-Hasegawa test...
  5. doi request reprint Rates of nucleotide substitution in Cornaceae (Cornales)-Pattern of variation and underlying causal factors
    Qiu Yun Jenny Xiang
    Department of Plant Biology, North Carolina State University, Gardner Hall 2115, Campus Box 7612, Raleigh, NC 27695, USA
    Mol Phylogenet Evol 49:327-42. 2008
    ..This was particularly pronounced in the dwarf dogwood lineage, in which genome-wide acceleration in both molecular and morphological evolution has likely occurred...
  6. doi request reprint Calculating bootstrap probabilities of phylogeny using multilocus sequence data
    Tae Kun Seo
    Professional Programme for Agricultural Bioinformatics, University of Tokyo, 1 1 1 Yayoi Bunkyo Ku, Tokyo 113 8657, Japan
    Mol Biol Evol 25:960-71. 2008
    ..Via simulation studies and empirical data analysis, we demonstrate that our 2-stage bootstrap procedures are more suitable than the conventional bootstrap procedure that is adopted after sequence concatenation...
  7. doi request reprint Synonymous substitutions substantially improve evolutionary inference from highly diverged proteins
    Tae Kun Seo
    Professional Programme for Agricultural Bioinformatics, Graduate School of Agricultural and Life Sciences, University of Tokyo, Tokyo, Japan
    Syst Biol 57:367-77. 2008
    ..Therefore, we note that amino acid models should be adopted only after carefully investigating and discarding the possibility that synonymous substitutions can reveal important evolutionary information...