Alkes L Price

Summary

Affiliation: Harvard University
Country: USA

Publications

  1. pmc New approaches to population stratification in genome-wide association studies
    Alkes L Price
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
    Nat Rev Genet 11:459-63. 2010
  2. pmc Single-tissue and cross-tissue heritability of gene expression via identity-by-descent in related or unrelated individuals
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America
    PLoS Genet 7:e1001317. 2011
  3. pmc The impact of divergence time on the nature of population structure: an example from Iceland
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, MA, USA
    PLoS Genet 5:e1000505. 2009
  4. pmc Effects of cis and trans genetic ancestry on gene expression in African Americans
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America
    PLoS Genet 4:e1000294. 2008
  5. pmc Reconstructing Indian population history
    David Reich
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nature 461:489-94. 2009
  6. pmc Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a Breast Cancer Consortium
    Bogdan Pasaniuc
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
    PLoS Genet 7:e1001371. 2011
  7. pmc Sensitive detection of chromosomal segments of distinct ancestry in admixed populations
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, MA, USA
    PLoS Genet 5:e1000519. 2009
  8. pmc A genomewide admixture map for Latino populations
    Alkes L Price
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Am J Hum Genet 80:1024-36. 2007
  9. pmc Improved ancestry inference using weights from external reference panels
    Chia Yen Chen
    Department of Epidemiology, Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA
    Bioinformatics 29:1399-406. 2013
  10. pmc Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection
    Gaurav Bhatia
    Harvard Massachusetts Institute of Technology MIT Division of Health, Science and Technology, Cambridge, USA
    Am J Hum Genet 89:368-81. 2011

Detail Information

Publications27

  1. pmc New approaches to population stratification in genome-wide association studies
    Alkes L Price
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
    Nat Rev Genet 11:459-63. 2010
    ..Here, we review recent progress on methods that correct for stratification while accounting for these additional complexities...
  2. pmc Single-tissue and cross-tissue heritability of gene expression via identity-by-descent in related or unrelated individuals
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America
    PLoS Genet 7:e1001317. 2011
    ....
  3. pmc The impact of divergence time on the nature of population structure: an example from Iceland
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, MA, USA
    PLoS Genet 5:e1000505. 2009
    ....
  4. pmc Effects of cis and trans genetic ancestry on gene expression in African Americans
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America
    PLoS Genet 4:e1000294. 2008
    ..Both effects are highly significant, and we estimate that 12+/-3% of all heritable variation in human gene expression is due to cis variants...
  5. pmc Reconstructing Indian population history
    David Reich
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nature 461:489-94. 2009
    ..We therefore predict that there will be an excess of recessive diseases in India, which should be possible to screen and map genetically...
  6. pmc Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a Breast Cancer Consortium
    Bogdan Pasaniuc
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
    PLoS Genet 7:e1001371. 2011
    ..Our methods and our publicly available software are broadly applicable to GWAS in admixed populations...
  7. pmc Sensitive detection of chromosomal segments of distinct ancestry in admixed populations
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, MA, USA
    PLoS Genet 5:e1000519. 2009
    ....
  8. pmc A genomewide admixture map for Latino populations
    Alkes L Price
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Am J Hum Genet 80:1024-36. 2007
    ..We evaluated the effectiveness of our map for localizing disease genes in four Latino populations from both North and South America...
  9. pmc Improved ancestry inference using weights from external reference panels
    Chia Yen Chen
    Department of Epidemiology, Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA
    Bioinformatics 29:1399-406. 2013
    ....
  10. pmc Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection
    Gaurav Bhatia
    Harvard Massachusetts Institute of Technology MIT Division of Health, Science and Technology, Cambridge, USA
    Am J Hum Genet 89:368-81. 2011
    ..The most significantly differentiated marker in our analysis, rs2920283, is highly differentiated in both Africa and East Asia and has prior genome-wide significant associations to bladder and gastric cancers...
  11. pmc Informed conditioning on clinical covariates increases power in case-control association studies
    Noah Zaitlen
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America
    PLoS Genet 8:e1003032. 2012
    ..This suggests that applying our method to existing and future association studies of these diseases may identify novel disease loci...
  12. pmc The history of African gene flow into Southern Europeans, Levantines, and Jews
    Priya Moorjani
    Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America
    PLoS Genet 7:e1001373. 2011
    ..For the Jewish admixture, we obtain an average estimated date of about 72 generations. This may reflect descent of these groups from a common ancestral population that already had some African ancestry prior to the Jewish Diasporas...
  13. pmc Discerning the ancestry of European Americans in genetic association studies
    Alkes L Price
    Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America
    PLoS Genet 4:e236. 2008
    ..We demonstrate that this panel of markers can be used to correct for stratification in association studies that do not generate dense genotype data...
  14. pmc Two independent alleles at 6q23 associated with risk of rheumatoid arthritis
    Robert M Plenge
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
    Nat Genet 39:1477-82. 2007
    ..We show that these two SNP associations are statistically independent, are each reproducible in the comparison of our data and WTCCC data, and define risk and protective haplotypes for rheumatoid arthritis at 6q23...
  15. pmc Population structure and eigenanalysis
    Nick Patterson
    Broad Institute of Harvard and MIT, Cambridge, Massachusetts, United States of America
    PLoS Genet 2:e190. 2006
    ..This means that we can predict the dataset size needed to detect structure...
  16. doi request reprint Replication and fine mapping of asthma-associated loci in individuals of African ancestry
    David B Kantor
    Division of Critical Care Medicine, Department of Anesthesiology, Perioperative and Pain Medicine, Boston Children s Hospital, 300 Longwood Avenue, Boston, MA, 02115, USA
    Hum Genet 132:1039-47. 2013
    ..These results improve the understanding of asthma genetics and further demonstrate the utility of genetic studies in populations other than those of largely European ancestry. ..
  17. pmc Using population admixture to help complete maps of the human genome
    Giulio Genovese
    Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
    Nat Genet 45:406-14, 414e1-2. 2013
    ..We describe how knowledge of the locations of these sequences can inform disease association and genome biology studies...
  18. pmc Analysis of case-control association studies with known risk variants
    Noah Zaitlen
    Department of Epidemiology, Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA
    Bioinformatics 28:1729-37. 2012
    ..Roughly, this method estimates model parameters for each known variant while accounting for the published disease prevalence from the epidemiological literature...
  19. pmc Pooled association tests for rare variants in exon-resequencing studies
    Alkes L Price
    Department of Epidemiology, Harvard School of Public Health, Boston, MA 02115, USA
    Am J Hum Genet 86:832-8. 2010
    ..We used a rigorous population-genetics simulation framework to evaluate the power of the method, and we applied the method to empirical sequencing data from three disease studies...
  20. pmc Reconstructing Native American population history
    David Reich
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nature 488:370-4. 2012
    ..A major exception is in Chibchan speakers on both sides of the Panama isthmus, who have ancestry from both North and South America...
  21. pmc Combining evidence of natural selection with association analysis increases power to detect malaria-resistance variants
    George Ayodo
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Am J Hum Genet 81:234-42. 2007
    ..This empirically demonstrates that combining association analysis with evidence of natural selection can increase power to detect risk variants by orders of magnitude--up to P=.000018 for HBB and P=.00043 for CD36...
  22. pmc Estimating and interpreting FST: the impact of rare variants
    Gaurav Bhatia
    Harvard Massachusetts Institute of Technology MIT, Division of Health, Science, and Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 23:1514-21. 2013
    ..Changes in each of these aspects of estimation may result in FST estimates that are highly divergent from one another. Here, we clarify these issues and propose solutions. ..
  23. ncbi request reprint Principal components analysis corrects for stratification in genome-wide association studies
    Alkes L Price
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nat Genet 38:904-9. 2006
    ..Our simple, efficient approach can easily be applied to disease studies with hundreds of thousands of markers...
  24. pmc Integrating common and rare genetic variation in diverse human populations
    David M Altshuler
    Broad Institute, 7 Cambridge Center, Cambridge, Massachusetts 02138, USA
    Nature 467:52-8. 2010
    ....
  25. pmc Genetic variation in RNASEL associated with prostate cancer risk and progression
    Mara S Meyer
    Department of Epidemiology, Harvard School of Public Health, Boston, MA, USA
    Carcinogenesis 31:1597-603. 2010
    ..The results of this study support a link between RNASEL and prostate cancer and suggest that the association may be mediated through inflammation. These novel findings warrant replication in future studies...
  26. pmc Quantifying Missing Heritability at Known GWAS Loci
    Alexander Gusev
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts, United States of America Medical and Population Genetics Program, Broad Institute, Cambridge, Massachusetts, United States of America
    PLoS Genet 9:e1003993. 2013
    ..These findings have important ramifications for fine-mapping study design and our understanding of complex disease architecture. ..
  27. pmc Extremely low-coverage sequencing and imputation increases power for genome-wide association studies
    Bogdan Pasaniuc
    Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
    Nat Genet 44:631-5. 2012
    ....