Paul Scheet

Summary

Affiliation: Washington University School of Medicine
Country: USA

Publications

  1. doi request reprint Twins, tissue, and time: an assessment of SNPs and CNVs
    Paul Scheet
    Department of Epidemiology, University of Texas MD Anderson Cancer Center, Houston, TX, USA
    Twin Res Hum Genet 15:737-45. 2012
  2. pmc Linkage disequilibrium-based quality control for large-scale genetic studies
    Paul Scheet
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS Genet 4:e1000147. 2008
  3. pmc A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase
    Paul Scheet
    Department of Statistics, University of Washington, Seattle, 98195 4322, USA
    Am J Hum Genet 78:629-44. 2006
  4. pmc Haploscope: a tool for the graphical display of haplotype structure in populations
    F Anthony San Lucas
    Department of Epidemiology, University of Texas MD Anderson Cancer Center, Houston, Texas, USA
    Genet Epidemiol 36:17-21. 2012
  5. pmc Diversity of human copy number variation and multicopy genes
    Peter H Sudmant
    Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA
    Science 330:641-6. 2010
  6. ncbi request reprint Automating sequence-based detection and genotyping of SNPs from diploid samples
    Matthew Stephens
    Department of Statistics, University of Washington, Seattle, Washington 98195, USA
    Nat Genet 38:375-81. 2006
  7. doi request reprint Genotype, haplotype and copy-number variation in worldwide human populations
    Mattias Jakobsson
    Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, Michigan 48109, USA
    Nature 451:998-1003. 2008
  8. pmc MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes
    Yun Li
    Department of Genetics, Department of Biostatistics, University of North Carolina, Chapel Hill, North Carolina, USA
    Genet Epidemiol 34:816-34. 2010
  9. pmc Genome-wide association analysis identifies variants associated with nonalcoholic fatty liver disease that have distinct effects on metabolic traits
    Elizabeth K Speliotes
    Department of Internal Medicine, Division of Gastroenterology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS Genet 7:e1001324. 2011
  10. pmc Interactions of dietary whole-grain intake with fasting glucose- and insulin-related genetic loci in individuals of European descent: a meta-analysis of 14 cohort studies
    Jennifer A Nettleton
    Division of Epidemiology, Human Genetics, and Environmental Sciences, University of Texas Health Sciences Center, Houston, Houston, Texas, USA
    Diabetes Care 33:2684-91. 2010

Detail Information

Publications18

  1. doi request reprint Twins, tissue, and time: an assessment of SNPs and CNVs
    Paul Scheet
    Department of Epidemiology, University of Texas MD Anderson Cancer Center, Houston, TX, USA
    Twin Res Hum Genet 15:737-45. 2012
    ..These results suggest that DNA from buccal samples perform as well as DNA from blood samples on the current generation of micro-array technologies...
  2. pmc Linkage disequilibrium-based quality control for large-scale genetic studies
    Paul Scheet
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS Genet 4:e1000147. 2008
    ..Our method is implemented in the software package fastPHASE, available from the Stephens Lab website (http://stephenslab.uchicago.edu/software.html)...
  3. pmc A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase
    Paul Scheet
    Department of Statistics, University of Washington, Seattle, 98195 4322, USA
    Am J Hum Genet 78:629-44. 2006
    ..The methods described in this article are implemented in a software package, fastPHASE, which is available from the Stephens Lab Web site...
  4. pmc Haploscope: a tool for the graphical display of haplotype structure in populations
    F Anthony San Lucas
    Department of Epidemiology, University of Texas MD Anderson Cancer Center, Houston, Texas, USA
    Genet Epidemiol 36:17-21. 2012
    ..Haploscope, which has flexible options for annotation and inspection of haplotypes, is available for download at http://scheet.org/software...
  5. pmc Diversity of human copy number variation and multicopy genes
    Peter H Sudmant
    Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA
    Science 330:641-6. 2010
    ..Our approach makes ~1000 genes accessible to genetic studies of disease association...
  6. ncbi request reprint Automating sequence-based detection and genotyping of SNPs from diploid samples
    Matthew Stephens
    Department of Statistics, University of Washington, Seattle, Washington 98195, USA
    Nat Genet 38:375-81. 2006
    ..9% genotyping accuracy. This algorithm is implemented in a software package, PolyPhred version 5.0, which is freely available for academic use...
  7. doi request reprint Genotype, haplotype and copy-number variation in worldwide human populations
    Mattias Jakobsson
    Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, Michigan 48109, USA
    Nature 451:998-1003. 2008
    ..Our results produce new inferences about inter-population variation, support the utility of CNVs in human population-genetic research, and serve as a genomic resource for human-genetic studies in diverse worldwide populations...
  8. pmc MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes
    Yun Li
    Department of Genetics, Department of Biostatistics, University of North Carolina, Chapel Hill, North Carolina, USA
    Genet Epidemiol 34:816-34. 2010
    ..Finally, we illustrate how association analyses of unobserved variants will benefit from ongoing advances such as larger HapMap reference panels and whole genome shotgun sequencing technologies...
  9. pmc Genome-wide association analysis identifies variants associated with nonalcoholic fatty liver disease that have distinct effects on metabolic traits
    Elizabeth K Speliotes
    Department of Internal Medicine, Division of Gastroenterology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS Genet 7:e1001324. 2011
    ....
  10. pmc Interactions of dietary whole-grain intake with fasting glucose- and insulin-related genetic loci in individuals of European descent: a meta-analysis of 14 cohort studies
    Jennifer A Nettleton
    Division of Epidemiology, Human Genetics, and Environmental Sciences, University of Texas Health Sciences Center, Houston, Houston, Texas, USA
    Diabetes Care 33:2684-91. 2010
    ..We tested the hypothesis that whole-grain food intake and genetic variation interact to influence concentrations of fasting glucose and insulin...
  11. pmc A comparison of approaches to account for uncertainty in analysis of imputed genotypes
    Jin Zheng
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, USA
    Genet Epidemiol 35:102-10. 2011
    ..However, for most realistic settings, we find that regressing the phenotype on the estimated allelic or genotypic dosage provides an attractive compromise between accuracy and computational tractability...
  12. pmc Accounting for decay of linkage disequilibrium in haplotype inference and missing-data imputation
    Matthew Stephens
    Department of Statistics, University of Washington, Seattle, WA 98195 4322, USA
    Am J Hum Genet 76:449-62. 2005
    ..Our method is implemented in the software package PHASE (v2.1.1), available from the Stephens Lab Web site...
  13. pmc Genotype-imputation accuracy across worldwide human populations
    Lucy Huang
    Department of Biostatistics, University of Michigan, Ann Arbor, MI 48109, USA
    Am J Hum Genet 84:235-50. 2009
    ..Our results can serve as a guide for selecting appropriate reference panels for imputation-based GWA analysis in diverse populations...
  14. pmc Haplotype-based profiling of subtle allelic imbalance with SNP arrays
    Selina Vattathil
    Human and Molecular Genetics Program, The University of Texas Graduate School of Biomedical Sciences, Houston, Texas 77030, USA
    Genome Res 23:152-8. 2013
    ..We anticipate our approach will offer a new paradigm for genomic profiling of heterogeneous samples...
  15. pmc Nicotinic acetylcholine receptor region on chromosome 15q25 and lung cancer risk among African Americans: a case-control study
    Christopher I Amos
    Department of Epidemiology, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA
    J Natl Cancer Inst 102:1199-205. 2010
    ..Thus, among African American persons, multiple loci in the region of chromosome 15q25.1 appear to be strongly associated with lung cancer risk...
  16. pmc New genetic loci implicated in fasting glucose homeostasis and their impact on type 2 diabetes risk
    Josee Dupuis
    Department of Biostatistics, Boston University School of Public Health, Massachusetts, USA
    Nat Genet 42:105-16. 2010
    ....
  17. pmc Integrated annotation and analysis of genetic variants from next-generation sequencing studies with variant tools
    F Anthony San Lucas
    Department of Epidemiology, University of Texas, MD Anderson Cancer Center, Houston, TX, USA
    Bioinformatics 28:421-2. 2012
    ..However, building flexible pipelines that support the tracking of variants alongside their samples, while enabling updated annotation and reanalyses, is not a simple task...
  18. 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
    ....