Jeffrey Wall

Summary

Affiliation: University of California
Country: USA

Publications

  1. ncbi request reprint Archaic admixture in the human genome
    Jeffrey D Wall
    Program in Molecular and Computational Biology, University of Southern California, Los Angeles, CA 90089, USA
    Curr Opin Genet Dev 16:606-10. 2006
  2. pmc Higher levels of neanderthal ancestry in East asians than in europeans
    Jeffrey D Wall
    Institute for Human Genetics, University of California, San Francisco, California 94143
    Genetics 194:199-209. 2013
  3. pmc Incomplete lineage sorting is common in extant gibbon genera
    Jeffrey D Wall
    Institute for Human Genetics, University of California San Francisco, San Francisco, California, United States of America
    PLoS ONE 8:e53682. 2013
  4. doi request reprint Paleopopulation genetics
    Jeffrey D Wall
    Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California, San Francisco, California 94134, USA
    Annu Rev Genet 46:635-49. 2012
  5. pmc Genomics through the lens of next-generation sequencing
    John A Capra
    Gladstone Institute of Cardiovascular Disease, University of California San Francisco, 1650 Owens Street, San Francisco, CA 94158, USA
    Genome Biol 11:306. 2010
  6. pmc Intergenic DNA sequences from the human X chromosome reveal high rates of global gene flow
    Murray P Cox
    ARL Division of Biotechnology, University of Arizona, AZ 85721, USA
    BMC Genet 9:76. 2008
  7. pmc Genetic variation in Native Americans, inferred from Latino SNP and resequencing data
    Jeffrey D Wall
    Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California San Francisco, CA, USA
    Mol Biol Evol 28:2231-7. 2011
  8. pmc Inconsistencies in Neanderthal genomic DNA sequences
    Jeffrey D Wall
    Institute for Human Genetics, University of California San Francisco, San Francisco, California, USA
    PLoS Genet 3:1862-6. 2007
  9. pmc Detecting ancient admixture and estimating demographic parameters in multiple human populations
    Jeffrey D Wall
    Department of Epidemiology and Biostatistics, Institute for Human Genetics, University of California San Francisco, CA, USA
    Mol Biol Evol 26:1823-7. 2009
  10. pmc Possible ancestral structure in human populations
    Vincent Plagnol
    Department of Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA
    PLoS Genet 2:e105. 2006

Detail Information

Publications18

  1. ncbi request reprint Archaic admixture in the human genome
    Jeffrey D Wall
    Program in Molecular and Computational Biology, University of Southern California, Los Angeles, CA 90089, USA
    Curr Opin Genet Dev 16:606-10. 2006
    ..Extensive sequencing of Neanderthal and other archaic human nuclear DNA has the potential to answer this question definitively within the next few years...
  2. pmc Higher levels of neanderthal ancestry in East asians than in europeans
    Jeffrey D Wall
    Institute for Human Genetics, University of California, San Francisco, California 94143
    Genetics 194:199-209. 2013
    ..In particular, at least some Neanderthal-modern human admixture must postdate the separation of the ancestors of modern European and modern East Asian populations...
  3. pmc Incomplete lineage sorting is common in extant gibbon genera
    Jeffrey D Wall
    Institute for Human Genetics, University of California San Francisco, San Francisco, California, United States of America
    PLoS ONE 8:e53682. 2013
    ..This uncertainty is due to short internal branch lengths and extensive incomplete lineage sorting across taxa. The true phylogenetic relationships among gibbon genera will likely require a more extensive whole-genome sequence analysis...
  4. doi request reprint Paleopopulation genetics
    Jeffrey D Wall
    Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California, San Francisco, California 94134, USA
    Annu Rev Genet 46:635-49. 2012
    ..In this review, we discuss recent developments in this emerging field as well as prospects for the future...
  5. pmc Genomics through the lens of next-generation sequencing
    John A Capra
    Gladstone Institute of Cardiovascular Disease, University of California San Francisco, 1650 Owens Street, San Francisco, CA 94158, USA
    Genome Biol 11:306. 2010
    ..A report on the 23rd annual meeting on 'The Biology of Genomes', 11-15 May 2010, Cold Spring Harbor, USA...
  6. pmc Intergenic DNA sequences from the human X chromosome reveal high rates of global gene flow
    Murray P Cox
    ARL Division of Biotechnology, University of Arizona, AZ 85721, USA
    BMC Genet 9:76. 2008
    ..This is partly because most analyses have applied one of two simple models of population structure, the island model or the splitting model, which make unrealistic biological assumptions...
  7. pmc Genetic variation in Native Americans, inferred from Latino SNP and resequencing data
    Jeffrey D Wall
    Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California San Francisco, CA, USA
    Mol Biol Evol 28:2231-7. 2011
    ..5 Kya; when uncertainty in the estimation process is taken into account, our results are consistent with archeological estimates for the colonization of the Americas...
  8. pmc Inconsistencies in Neanderthal genomic DNA sequences
    Jeffrey D Wall
    Institute for Human Genetics, University of California San Francisco, San Francisco, California, USA
    PLoS Genet 3:1862-6. 2007
    ....
  9. pmc Detecting ancient admixture and estimating demographic parameters in multiple human populations
    Jeffrey D Wall
    Department of Epidemiology and Biostatistics, Institute for Human Genetics, University of California San Francisco, CA, USA
    Mol Biol Evol 26:1823-7. 2009
    ..We find evidence for this ancient admixture in European, East Asian, and West African samples, suggesting that admixture between diverged hominin groups may be a general feature of recent human evolution...
  10. pmc Possible ancestral structure in human populations
    Vincent Plagnol
    Department of Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA
    PLoS Genet 2:e105. 2006
    ..While Neanderthals form an obvious archaic source population candidate in Europe, there is not yet a clear source population candidate in West Africa...
  11. pmc The pattern of polymorphism in Arabidopsis thaliana
    Magnus Nordborg
    Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA
    PLoS Biol 3:e196. 2005
    ..Despite this, our data support the utility of A. thaliana as a model for evolutionary functional genomics...
  12. pmc A novel DNA sequence database for analyzing human demographic history
    Jeffrey D Wall
    Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, CA 94143, USA
    Genome Res 18:1354-61. 2008
    ....
  13. pmc Haplotypic background of a private allele at high frequency in the Americas
    Kari B Schroeder
    Department of Anthropology, University of California, Davis, CA, USA
    Mol Biol Evol 26:995-1016. 2009
    ....
  14. pmc Sex-biased evolutionary forces shape genomic patterns of human diversity
    Michael F Hammer
    ARL Division of Biotechnology, University of Arizona, Tucson, Arizona, USA
    PLoS Genet 4:e1000202. 2008
    ....
  15. pmc Estimating recombination rates from single-nucleotide polymorphisms using summary statistics
    Badri Padhukasahasram
    Molecular and Computational Biology and Biostatistics Division, Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, California 90089, USA
    Genetics 174:1517-28. 2006
    ..We used our method to analyze a human data set recently genotyped by Perlegen Sciences...
  16. pmc Estimating recombination rates using three-site likelihoods
    Jeffrey D Wall
    Program in Molecular and Computational Biology, University of Southern California, Los Angeles, California 90089, USA
    Genetics 167:1461-73. 2004
    ..While existing methods can easily estimate an "average" gene conversion rate over many loci, they cannot reliably estimate gene conversion rates for a single region of the genome...
  17. ncbi request reprint Close look at gene conversion hot spots
    Jeffrey D Wall
    Nat Genet 36:114-5. 2004
  18. pmc Comparative linkage-disequilibrium analysis of the beta-globin hotspot in primates
    Jeffrey D Wall
    Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 73:1330-40. 2003
    ..These results suggest a time scale for the evolution of hotspots in primates. Furthermore, they allow us to propose diverged sequence elements that may contribute to the differences in the recombinational landscape in the two species...

Research Grants3

  1. Simulation algorithms for genome-wide data and application to admixed data
    Jeffrey Wall; Fiscal Year: 2009
    ..This work will also help us determine the marker density and sample size needed for future association studies. ..
  2. Simulation algorithms for genome-wide data and application to admixed data
    Jeffrey Wall; Fiscal Year: 2007
    ..This work will also help us determine the marker density and sample size needed for future association studies. ..