Toby Johnson

Summary

Affiliation: University of Edinburgh
Country: UK

Publications

  1. pmc Beneficial mutations, hitchhiking and the evolution of mutation rates in sexual populations
    T Johnson
    Institute of Cell, Animal and Population Biology, University of Edinburgh, Edinburgh EH9 3JT, Scotland
    Genetics 151:1621-31. 1999
  2. ncbi request reprint Bayesian method for gene detection and mapping, using a case and control design and DNA pooling
    Toby Johnson
    School of Biological Sciences, The University of Edinburgh, Edinburgh EH9 3JT, UK
    Biostatistics 8:546-65. 2007
  3. pmc Theoretical models of selection and mutation on quantitative traits
    Toby Johnson
    Rothamsted Research, Harpenden, Hertfordshire AL5 2FQ, UK
    Philos Trans R Soc Lond B Biol Sci 360:1411-25. 2005
  4. ncbi request reprint Multipoint linkage disequilibrium mapping using multilocus allele frequency data
    T Johnson
    Rothamsted Research, Harpenden, and School of Biological Sciences, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, Scotland, UK
    Ann Hum Genet 69:474-97. 2005
  5. pmc The approach to mutation-selection balance in an infinite asexual population, and the evolution of mutation rates
    T Johnson
    Institute of Cell, Animal and Population Biology, University of Edinburgh, UK
    Proc Biol Sci 266:2389-97. 1999
  6. pmc MCALIGN2: faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution
    Jun Wang
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JT, UK
    BMC Bioinformatics 7:292. 2006
  7. pmc Performance of marker-based relatedness estimators in natural populations of outbred vertebrates
    Katalin Csilléry
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, UK
    Genetics 173:2091-101. 2006
  8. pmc MCALIGN: stochastic alignment of noncoding DNA sequences based on an evolutionary model of sequence evolution
    Peter D Keightley
    University of Edinburgh, School of Biological Sciences, Ashworth Laboratories, Edinburgh EH9 3JT, UK Peter Keightley_at_ed ac uk
    Genome Res 14:442-50. 2004
  9. pmc The effect of deleterious alleles on adaptation in asexual populations
    Toby Johnson
    Department of Zoology, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada
    Genetics 162:395-411. 2002
  10. pmc General models of multilocus evolution
    Mark Kirkpatrick
    Section of Integrative Biology, University of Texas, Austin, Texas 78712, USA
    Genetics 161:1727-50. 2002

Detail Information

Publications15

  1. pmc Beneficial mutations, hitchhiking and the evolution of mutation rates in sexual populations
    T Johnson
    Institute of Cell, Animal and Population Biology, University of Edinburgh, Edinburgh EH9 3JT, Scotland
    Genetics 151:1621-31. 1999
    ..However, the role of beneficial mutations in determining the evolutionarily stable mutation rate may still be significant if the function describing the cost of high-fidelity replication has a shallow gradient...
  2. ncbi request reprint Bayesian method for gene detection and mapping, using a case and control design and DNA pooling
    Toby Johnson
    School of Biological Sciences, The University of Edinburgh, Edinburgh EH9 3JT, UK
    Biostatistics 8:546-65. 2007
    ..The method is illustrated on data consisting of 27 markers in an 880-kb region around the CYP2D6 gene...
  3. pmc Theoretical models of selection and mutation on quantitative traits
    Toby Johnson
    Rothamsted Research, Harpenden, Hertfordshire AL5 2FQ, UK
    Philos Trans R Soc Lond B Biol Sci 360:1411-25. 2005
    ..We discuss some of the thorny issues that arise when formulating models that describe many traits simultaneously...
  4. ncbi request reprint Multipoint linkage disequilibrium mapping using multilocus allele frequency data
    T Johnson
    Rothamsted Research, Harpenden, and School of Biological Sciences, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, Scotland, UK
    Ann Hum Genet 69:474-97. 2005
    ..Depending on how we choose to measure information, allele frequency data at an additional approximately 18 or approximately 33 markers is needed to compensate for this loss of information...
  5. pmc The approach to mutation-selection balance in an infinite asexual population, and the evolution of mutation rates
    T Johnson
    Institute of Cell, Animal and Population Biology, University of Edinburgh, UK
    Proc Biol Sci 266:2389-97. 1999
    ..This flux raises the mean fitness of the mutator subpopulation, and when this factor is taken into account, the frequency of the mutator may be more than an order of magnitude greater than recent theoretical work has suggested...
  6. pmc MCALIGN2: faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution
    Jun Wang
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JT, UK
    BMC Bioinformatics 7:292. 2006
    ..Unraveling the functional significance of non-coding DNA depends on how well we are able to align non-coding DNA sequences. However, the alignment of non-coding DNA sequences is more difficult than aligning protein-coding sequences...
  7. pmc Performance of marker-based relatedness estimators in natural populations of outbred vertebrates
    Katalin Csilléry
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, UK
    Genetics 173:2091-101. 2006
    ..Our five examples of vertebrate breeding systems suggest that due to the remarkably low variance in relatedness across the population, marker-based estimates may often have low power to address research questions of interest...
  8. pmc MCALIGN: stochastic alignment of noncoding DNA sequences based on an evolutionary model of sequence evolution
    Peter D Keightley
    University of Edinburgh, School of Biological Sciences, Ashworth Laboratories, Edinburgh EH9 3JT, UK Peter Keightley_at_ed ac uk
    Genome Res 14:442-50. 2004
    ..We show that there is excellent agreement between true and estimated alignments over a wide range of sequence divergences, and that the method outperforms other available alignment methods...
  9. pmc The effect of deleterious alleles on adaptation in asexual populations
    Toby Johnson
    Department of Zoology, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada
    Genetics 162:395-411. 2002
    ..Again, this analysis relaxes the assumption made previously that selection against deleterious alleles is stronger than on beneficial alleles...
  10. pmc General models of multilocus evolution
    Mark Kirkpatrick
    Section of Integrative Biology, University of Texas, Austin, Texas 78712, USA
    Genetics 161:1727-50. 2002
    ..We illustrate the methods by finding the effect of natural selection, sexual selection, mutation, and migration on the genetic composition of a population...
  11. pmc Common variants near MC4R are associated with fat mass, weight and risk of obesity
    Ruth J F Loos
    MRC Epidemiology Unit, Addenbrooke s Hospital, Cambridge CB2 0QQ, UK
    Nat Genet 40:768-75. 2008
    ....
  12. pmc Genome-wide association analysis identifies 20 loci that influence adult height
    Michael N Weedon
    Genetics of Complex Traits, Institute of Biomedical and Clinical Science, Peninsula Medical School, Magdalen Road, Exeter EX1 2LU, UK
    Nat Genet 40:575-83. 2008
    ..Finally, our results provide insights into the genetic architecture of a classic quantitative trait...
  13. pmc LDL-cholesterol concentrations: a genome-wide association study
    Manjinder S Sandhu
    Department of Public Health and Primary Care, Strangeways Research Laboratory, University of Cambridge, Cambridge, UK
    Lancet 371:483-91. 2008
    ..We therefore did a genome-wide association study of LDL-cholesterol concentrations...
  14. ncbi request reprint The fixation probability of a beneficial allele in a population dividing by binary fission
    Toby Johnson
    Department of Zoology, University of British Columbia, Vancouver, Canada
    Genetica 115:283-7. 2002
    ..We find that P approximately = 2s for mutations occurring during chromosome replication and P approximately = 2.8s for mutations occurring at random times between replication events...
  15. pmc Population-based genome-wide association studies reveal six loci influencing plasma levels of liver enzymes
    Xin Yuan
    Genetics Division, GlaxoSmithKline, King of Prussia, PA 19406, USA
    Am J Hum Genet 83:520-8. 2008
    ..The specific associations with ALP levels may point to genes for bone or intestinal diseases...