Asger Hobolth

Summary

Affiliation: University of Aarhus
Country: Denmark

Publications

  1. ncbi request reprint CpG + CpNpG analysis of protein-coding sequences from tomato
    Asger Hobolth
    Bioinformatics Research Center, North Carolina State University, USA
    Mol Biol Evol 23:1318-23. 2006
  2. pmc Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model
    Asger Hobolth
    Bioinformatics Research Center, North Carolina State University, Raleigh, North Carolina, United States of America
    PLoS Genet 3:e7. 2007
  3. pmc Importance sampling for the infinite sites model
    Asger Hobolth
    Aarhus University
    Stat Appl Genet Mol Biol 7:Article32. 2008
  4. pmc Ancestral population genomics: the coalescent hidden Markov model approach
    Julien Y Dutheil
    Bioinformatics Research Center, Aarhus University, C F Møllers Allé 8, Bldg 1110, DK 8000 Aarhus C, Denmark
    Genetics 183:259-74. 2009
  5. pmc A new isolation with migration model along complete genomes infers very different divergence processes among closely related great ape species
    Thomas Mailund
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    PLoS Genet 8:e1003125. 2012
  6. pmc Incomplete lineage sorting patterns among human, chimpanzee, and orangutan suggest recent orangutan speciation and widespread selection
    Asger Hobolth
    Bioinformatics Research Center, Aarhus University, DK 8000 Aarhus C, Denmark
    Genome Res 21:349-56. 2011
  7. doi request reprint The genealogy, site frequency spectrum and ages of two nested mutant alleles
    Asger Hobolth
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    Theor Popul Biol 75:260-5. 2009
  8. pmc Comparison of methods for calculating conditional expectations of sufficient statistics for continuous time Markov chains
    Paula Tataru
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    BMC Bioinformatics 12:465. 2011
  9. ncbi request reprint Quantifying the impact of protein tertiary structure on molecular evolution
    Sang Chul Choi
    Bioinformatics Research Center, North Carolina State University, NC, USA
    Mol Biol Evol 24:1769-82. 2007
  10. ncbi request reprint Pseudo-likelihood analysis of codon substitution models with neighbor-dependent rates
    Ole F Christensen
    Bioinformatics Research Center, University of Aarhus, Denmark
    J Comput Biol 12:1166-82. 2005

Collaborators

Detail Information

Publications14

  1. ncbi request reprint CpG + CpNpG analysis of protein-coding sequences from tomato
    Asger Hobolth
    Bioinformatics Research Center, North Carolina State University, USA
    Mol Biol Evol 23:1318-23. 2006
    ..Our results suggest different roles of CpG and CpNpG methylation, with CpNpG methylation possibly playing a specialized role in defense against transposons and RNA viruses...
  2. pmc Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model
    Asger Hobolth
    Bioinformatics Research Center, North Carolina State University, Raleigh, North Carolina, United States of America
    PLoS Genet 3:e7. 2007
    ....
  3. pmc Importance sampling for the infinite sites model
    Asger Hobolth
    Aarhus University
    Stat Appl Genet Mol Biol 7:Article32. 2008
    ..The new proposal is derived from a new result on exact sampling from a single site. The methods are illustrated on simulated data sets and the data considered in Griffiths and Tavaré (1994)...
  4. pmc Ancestral population genomics: the coalescent hidden Markov model approach
    Julien Y Dutheil
    Bioinformatics Research Center, Aarhus University, C F Møllers Allé 8, Bldg 1110, DK 8000 Aarhus C, Denmark
    Genetics 183:259-74. 2009
    ..We expect that this framework will prove useful for population genomics and provide exciting insights into genome evolution...
  5. pmc A new isolation with migration model along complete genomes infers very different divergence processes among closely related great ape species
    Thomas Mailund
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    PLoS Genet 8:e1003125. 2012
    ..We also apply the model to the Homo/Pan speciation event and find that the most likely scenario involves an extended period of gene flow during speciation...
  6. pmc Incomplete lineage sorting patterns among human, chimpanzee, and orangutan suggest recent orangutan speciation and widespread selection
    Asger Hobolth
    Bioinformatics Research Center, Aarhus University, DK 8000 Aarhus C, Denmark
    Genome Res 21:349-56. 2011
    ..Finally, we find the broad-scale recombination rate to be conserved through the complete ape phylogeny...
  7. doi request reprint The genealogy, site frequency spectrum and ages of two nested mutant alleles
    Asger Hobolth
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    Theor Popul Biol 75:260-5. 2009
    ..We show that the age of the youngest mutation does not depend on the frequency of the single mutant allele and that the frequency spectra for the single mutant allele and the zero mutant allele are the same...
  8. pmc Comparison of methods for calculating conditional expectations of sufficient statistics for continuous time Markov chains
    Paula Tataru
    Bioinformatics Research Center, Aarhus University, Aarhus, Denmark
    BMC Bioinformatics 12:465. 2011
    ..In applications past evolutionary events (exact times and types of changes) are unaccessible and the past must be inferred from DNA sequence data observed in the present...
  9. ncbi request reprint Quantifying the impact of protein tertiary structure on molecular evolution
    Sang Chul Choi
    Bioinformatics Research Center, North Carolina State University, NC, USA
    Mol Biol Evol 24:1769-82. 2007
    ..Although their influences on rates of evolution vary among protein families, we find that the mean impacts of solvent accessibility and pairwise interactions are about the same...
  10. ncbi request reprint Pseudo-likelihood analysis of codon substitution models with neighbor-dependent rates
    Ole F Christensen
    Bioinformatics Research Center, University of Aarhus, Denmark
    J Comput Biol 12:1166-82. 2005
    ..The pseudo-likelihood estimates are shown to be very accurate, and from analyzing 348 human-mouse coding sequences we conclude that the incorporation of a CpG effect improves the fit of the model considerably...
  11. ncbi request reprint Bayesian regularization of diffusion tensor images
    Jesper Frandsen
    Department of Neuroradiology, Centre for Functionally Integrative Neuroscience, Arhus University Hospital, Arhus, Denmark
    Biostatistics 8:784-99. 2007
    ..In this paper, we develop a Bayesian procedure for regularizing the diffusion tensor field, fully utilizing the available 3D information of fiber orientation. The use of the procedure is exemplified on synthetic and in vivo data...
  12. ncbi request reprint Applications of hidden Markov models for characterization of homologous DNA sequences with a common gene
    Asger Hobolth
    Bioinformatics Research Center, University of Aarhus, Aarhus, Denmark
    J Comput Biol 12:186-203. 2005
    ..This unified model is particularly useful for a detailed characterization of DNA sequences with a common gene. We illustrate the model on a variety of homologous sequences...
  13. pmc Comparative analysis of protein coding sequences from human, mouse and the domesticated pig
    Frank Grønlund Jørgensen
    Department of Ecology and Genetics, University of Aarhus, Aarhus C, Denmark
    BMC Biol 3:2. 2005
    ....
  14. ncbi request reprint The spherical deformation model
    Asger Hobolth
    Department of Mathematical Sciences, University of Aarhus, Ny Munkegade, 8000 Aarhus C, Denmark
    Biostatistics 4:583-95. 2003
    ..We use maximum-likelihood-based inference for this purpose and demonstrate the suggested methods on real data...