MARY S MCPEEK

Summary

Affiliation: University of Chicago
Country: USA

Publications

  1. pmc BLUP genotype imputation for case-control association testing with related individuals and missing data
    Mary Sara McPeek
    Departments of Statistics and Human Genetics, University of Chicago, Chicago, IL, USA
    J Comput Biol 19:756-65. 2012
  2. ncbi request reprint Optimal allele-sharing statistics for genetic mapping using affected relatives
    M S McPeek
    Department of Statistics, University of Chicago, Illinois 60637, USA
    Genet Epidemiol 16:225-49. 1999
  3. ncbi request reprint Best linear unbiased allele-frequency estimation in complex pedigrees
    Mary Sara McPeek
    Department of Statistics, University of Chicago, 5734 S University Avenue, Chicago, Illinois 60637, USA
    Biometrics 60:359-67. 2004
  4. pmc Assessment of linkage disequilibrium by the decay of haplotype sharing, with application to fine-scale genetic mapping
    M S McPeek
    Department of Statistics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 65:858-75. 1999
  5. pmc Statistical tests for detection of misspecified relationships by use of genome-screen data
    M S McPeek
    Department of Statistics, University of Chicago, Chicago, IL, 60637, USA
    Am J Hum Genet 66:1076-94. 2000
  6. ncbi request reprint Multilocus linkage disequilibrium mapping by the decay of haplotype sharing with samples of related individuals
    Jian Zhang
    Department of Statistics, University of Chicago, Chicago, Illinois 60637, USA
    Genet Epidemiol 29:128-40. 2005
  7. pmc ATRIUM: testing untyped SNPs in case-control association studies with related individuals
    Zuoheng Wang
    Department of Statistics, The University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 85:667-78. 2009
  8. pmc A statistical method for identification of polymorphisms that explain a linkage result
    Lei Sun
    Department of Statistics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 70:399-411. 2002
  9. ncbi request reprint Are common disease susceptibility alleles the same in outbred and founder populations?
    Dina L Newman
    Department of Human Genetics, University of Chicago, Chicago, IL, USA
    Eur J Hum Genet 12:584-90. 2004
  10. pmc Quantitative-trait homozygosity and association mapping and empirical genomewide significance in large, complex pedigrees: fasting serum-insulin level in the Hutterites
    Mark Abney
    Department of Human Genetics, University of Chicago, 920 East 85th Street, Chicago, IL 60637, USA
    Am J Hum Genet 70:920-34. 2002

Research Grants

  1. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2007
  2. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2009
  3. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2010

Collaborators

Detail Information

Publications22

  1. pmc BLUP genotype imputation for case-control association testing with related individuals and missing data
    Mary Sara McPeek
    Departments of Statistics and Human Genetics, University of Chicago, Chicago, IL, USA
    J Comput Biol 19:756-65. 2012
    ..We also investigate the amount of additional power for detecting association that is provided by this BLUP imputation approach...
  2. ncbi request reprint Optimal allele-sharing statistics for genetic mapping using affected relatives
    M S McPeek
    Department of Statistics, University of Chicago, Illinois 60637, USA
    Genet Epidemiol 16:225-49. 1999
    ..We also find that for models with large deviation from null sharing, the correspondence between allele-sharing statistics and the models for which they are optimal may also depend on which method is used to test for linkage...
  3. ncbi request reprint Best linear unbiased allele-frequency estimation in complex pedigrees
    Mary Sara McPeek
    Department of Statistics, University of Chicago, 5734 S University Avenue, Chicago, Illinois 60637, USA
    Biometrics 60:359-67. 2004
    ..We apply our method to allele-frequency estimation in a Hutterite data set...
  4. pmc Assessment of linkage disequilibrium by the decay of haplotype sharing, with application to fine-scale genetic mapping
    M S McPeek
    Department of Statistics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 65:858-75. 1999
    ..Simulations show that this approach works extremely well both for estimation of LD and for fine mapping. We apply the DHS method to published data sets for cystic fibrosis and progressive myoclonus epilepsy...
  5. pmc Statistical tests for detection of misspecified relationships by use of genome-screen data
    M S McPeek
    Department of Statistics, University of Chicago, Chicago, IL, 60637, USA
    Am J Hum Genet 66:1076-94. 2000
    ..We apply the methods to a Genetic Analysis Workshop 11 data set from the Collaborative Study on the Genetics of Alcoholism...
  6. ncbi request reprint Multilocus linkage disequilibrium mapping by the decay of haplotype sharing with samples of related individuals
    Jian Zhang
    Department of Statistics, University of Chicago, Chicago, Illinois 60637, USA
    Genet Epidemiol 29:128-40. 2005
    ..We apply the method to fine-mapping of a susceptibility locus for bronchial hyperresponsiveness (BHR) in the Hutterites. The results confirm the importance of taking into account the relatedness of individuals in LD mapping...
  7. pmc ATRIUM: testing untyped SNPs in case-control association studies with related individuals
    Zuoheng Wang
    Department of Statistics, The University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 85:667-78. 2009
    ..We apply the method to detect association between type 2 diabetes and variants on chromosome 10 in the Framingham SHARe data...
  8. pmc A statistical method for identification of polymorphisms that explain a linkage result
    Lei Sun
    Department of Statistics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 70:399-411. 2002
    ..We extend our method to larger sibships and apply it to an NIDDM1 data set...
  9. ncbi request reprint Are common disease susceptibility alleles the same in outbred and founder populations?
    Dina L Newman
    Department of Human Genetics, University of Chicago, Chicago, IL, USA
    Eur J Hum Genet 12:584-90. 2004
    ..05), with five loci remaining significant after adjusting for multiple comparisons. These data indicate that this founder population is informative and offers considerable advantages for genetic studies of common complex diseases...
  10. pmc Quantitative-trait homozygosity and association mapping and empirical genomewide significance in large, complex pedigrees: fasting serum-insulin level in the Hutterites
    Mark Abney
    Department of Human Genetics, University of Chicago, 920 East 85th Street, Chicago, IL 60637, USA
    Am J Hum Genet 70:920-34. 2002
    ..We apply our methods to a genome screen for fasting insulin level in the Hutterites. We detect significant genomewide linkage on chromosome 19 and suggestive evidence of QTLs on chromosomes 1 and 16...
  11. pmc Multipoint linkage-disequilibrium mapping with haplotype-block structure
    Maoxia Zheng
    Department of Statistics, University of Chicago, Chicago, IL, 60637, USA
    Am J Hum Genet 80:112-25. 2007
    ..More-modest gains are obtained in improving power to detect association with a variant that is typed with a moderate amount of missing data. The methods are applied to a Crohn disease data set...
  12. pmc Laplacian eigenfunctions learn population structure
    Jun Zhang
    Department of Radiology, The University of Chicago, Chicago, Illinois, United States of America
    PLoS ONE 4:e7928. 2009
    ..The proposed approach is simple and computationally fast. It is expected to become a promising and basic method for population genetics and disease association studies...
  13. ncbi request reprint Major loci influencing serum triglyceride levels on 2q14 and 9p21 localized by homozygosity-by-descent mapping in a large Hutterite pedigree
    Dina L Newman
    Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA
    Hum Mol Genet 12:137-44. 2003
    ..005) and at IFNA on chromosome 9p21 (locus P=4.3 x 10(-5), genome-wide P=0.024). In each case, homozygosity at the locus is associated with low TG levels, suggesting that alleles at nearby loci may protect against high TG levels...
  14. pmc Case-control association testing with related individuals: a more powerful quasi-likelihood score test
    Timothy Thornton
    Department of Statistics, University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 81:321-37. 2007
    ..0x10(-7)), tsc0046696 (P=4.7x10(-7)), and tsc0057290 (P=5.2x10(-7)) on chromosomes 1, 16, 18, and 18, respectively. Three of these four significant associations were not detected in previous studies analyzing these data...
  15. ncbi request reprint Enhanced pedigree error detection
    Lei Sun
    Department of Statistics, University of Chicago, Chicago, Ill, USA
    Hum Hered 54:99-110. 2002
    ..When a potential pedigree error is detected, our companion program, ALTERTEST, can be used to determine which relationships are compatible with the genotype data. Both programs are now freely available on the web...
  16. ncbi request reprint Genome-wide association study identifies ITGB3 as a QTL for whole blood serotonin
    Lauren A Weiss
    Department of Human Genetics, The University of Chicago, Chicago, IL 60637, USA
    Eur J Hum Genet 12:949-54. 2004
    ..8 x 10(-5)). This variant explained the evidence for linkage in this region when included as a covariate in the linkage analysis (change in LOD from 1.87 to 0.16), indicating that ITGB3 may be an important serotonin QTL...
  17. pmc Novel case-control test in a founder population identifies P-selectin as an atopy-susceptibility locus
    Catherine Bourgain
    Department of Human Genetics, University of Chicago, Chicago, IL, USA
    Am J Hum Genet 73:612-26. 2003
    ..10-6) between atopy and an amino acid polymorphism in the P-selectin gene, detected with the QLS test and also, but less significantly (P=.0014), with the transmission/disequilibrium test...
  18. pmc Correlation of intergenerational family sizes suggests a genetic component of reproductive fitness
    Anna Pluzhnikov
    Department of Medicine, University of Chicago, Chicago, IL, 60637, USA
    Am J Hum Genet 81:165-9. 2007
    ..23 between couples and their daughters; empirical P<1x10-6 and P=.00059, respectively). We interpret these results as indicating a significant genetic component to reproductive fitness in the Hutterites...
  19. pmc Complex genetic interactions underlying expression differences between Drosophila races: analysis of chromosome substitutions
    Hurng Yi Wang
    Graduate Institute of Clinical Medicine, National Taiwan University, 7 Chung Shan South Road, Taipei 100, Taiwan
    Proc Natl Acad Sci U S A 105:6362-7. 2008
    ..Between Drosophila racial groups, trans regulation of expression difference is extensive, and cis regulation often evolves in conjunction with trans effects...
  20. ncbi request reprint Likelihood-based inference for multi-color optical mapping
    Liping Tong
    University of Washington, USA
    Stat Appl Genet Mol Biol 6:Article5. 2007
    ..In addition, a simulated annealing procedure is applied to maximize the profile likelihood over the discrete space of sequences of colors. We apply the methods to simulated data on the bacteriophage lambda genome...
  21. ncbi request reprint Incorporating interference into linkage analysis for experimental crosses
    Nicola J Armstrong
    Division of Radiotherapy, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands
    Biostatistics 7:374-86. 2006
    ..Simulation results show the impact of using this model on the accuracy of estimated genetic maps...
  22. pmc Testing for Hardy-Weinberg equilibrium in samples with related individuals
    Catherine Bourgain
    INSERM U535, 94817 Villejuif Cedex, France
    Genetics 168:2349-61. 2004
    ..Finally, the method is used to test a set of 143 biallelic markers spanning 82 genes in this latter population...

Research Grants8

  1. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2007
    ..Our preliminary studies indicate that these approaches can improve the ability to detect and localize genes for complex traits, thereby improving the odds for successful positional cloning. ..
  2. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2009
    ....
  3. Methods for Human Genetic Mapping
    Mary Sara McPeek; Fiscal Year: 2010
    ....