Philip L F Johnson

Summary

Affiliation: University of California
Country: USA

Publications

  1. ncbi Inference of population genetic parameters in metagenomics: a clean look at messy data
    Philip L F Johnson
    Biophysics Graduate Group, University of California, Berkeley, California 94720, USA
    Genome Res 16:1320-7. 2006
  2. ncbi Accounting for bias from sequencing error in population genetic estimates
    Philip L F Johnson
    Biophysics Graduate Group, University of California, Berkeley, USA
    Mol Biol Evol 25:199-206. 2008
  3. ncbi Inference of microbial recombination rates from metagenomic data
    Philip L F Johnson
    Biophysics Graduate Group, University of California Berkeley, Berkeley, California, United States of America
    PLoS Genet 5:e1000674. 2009
  4. ncbi Patterns of damage in genomic DNA sequences from a Neandertal
    Adrian W Briggs
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Proc Natl Acad Sci U S A 104:14616-21. 2007
  5. ncbi A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing
    Richard E Green
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Cell 134:416-26. 2008

Detail Information

Publications5

  1. ncbi Inference of population genetic parameters in metagenomics: a clean look at messy data
    Philip L F Johnson
    Biophysics Graduate Group, University of California, Berkeley, California 94720, USA
    Genome Res 16:1320-7. 2006
    ..We illustrate the use of our technique on a new project analyzing activated sludge from a lab-scale bioreactor seeded by a wastewater treatment plant...
  2. ncbi Accounting for bias from sequencing error in population genetic estimates
    Philip L F Johnson
    Biophysics Graduate Group, University of California, Berkeley, USA
    Mol Biol Evol 25:199-206. 2008
    ..We propose a rule of thumb to judge when a given threshold will lead to significant bias and suggest alternative approaches that reduce bias...
  3. ncbi Inference of microbial recombination rates from metagenomic data
    Philip L F Johnson
    Biophysics Graduate Group, University of California Berkeley, Berkeley, California, United States of America
    PLoS Genet 5:e1000674. 2009
    ..The method itself makes no assumption specific to microbial populations, opening the door for application to any mixed population sample where the number of individuals sampled is much greater than the number of fragments sequenced...
  4. ncbi Patterns of damage in genomic DNA sequences from a Neandertal
    Adrian W Briggs
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Proc Natl Acad Sci U S A 104:14616-21. 2007
    ..The results suggest that reliable genome sequences can be obtained from Pleistocene organisms...
  5. ncbi A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing
    Richard E Green
    Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
    Cell 134:416-26. 2008
    ..There is evidence that purifying selection in the Neandertal mtDNA was reduced compared with other primate lineages, suggesting that the effective population size of Neandertals was small...