Mary Sara McPeek's Publications


Last updated 4 June 2021
  1. Guerra, R., McPeek, M. S., Speed, T., Stewart, M. (1992) A Bayesian analysis for mapping from radiation hybrid data Cytogenetics and Cell Genetics 59: 104-106

  2. Speed, T., McPeek, M. S., Evans, S. (1992) Robustness of the no-interference model for ordering markers PNAS 89:3103-3106

  3. Evans, S., McPeek, M. S., Speed, T. (1993)A characterisation of crossover models that possess map functions Theor. Popul. Biol. 43: 80-90, with S.N. Evans and T.P. Speed

  4. Applications of Statistics to Modeling Genetic Recombination and Ordering Chromosome Markers by Linkage Analysis. Ph.D. thesis, Department of Statistics, University of California at Berkeley (1993)

  5. Scherer, S., McPeek, M. S., Speed, T. (1994) Atypical regions in large genomic DNA sequences PNAS 91:7134-7138

  6. McPeek M. S. (1995) Constrained maximum likelihood estimation for ordering three genetic loci with a small-sample robustness result for the no-interference model. Techincal report #410, Department of Statistics, University of Chicago (1995)

  7. McPeek, M. S., Speed, T. (1995) Modeling interference in genetic recombination Genetics 139:1031-1044

  8. Zhao, H., Speed, T., McPeek, M.S. (1995) Statistical analysis of crossover interference using the chi-square model Genetics 139:1045-1056

  9. Zhao, H., McPeek, M. S., Speed, T. (1995) Statistical analysis of chromatid interference Genetics 139:1057-1065

  10. Leeflang, E., McPeek, M. S., Arnheim, N. (1996) Analysis of meiotic segregation using single-sperm typing: meiotic drive at the Myotonic Dystrophy locus Am J Hum Genet 59:896-904

  11. McPeek M. S. (1996) Introduction to recombination and linkage analysis IMA Volumes in Mathematics and its Applications, Volume 81, Genetic mapping and DNA sequencing, T. P. Speed and M. S. Waterman, eds., Springer-Verlag New York Publishers

  12. McPeek M. S. (1999) Optimal allele-sharing statistics for genetic mapping using affected relatives Genet Epi 16:225-249 Typo in published version

  13. Grewal, R. P., Cancel G., Leeflang E. P., Duerr A., McPeek M. S., Draghinas D., Xiang Y., Stevanin G., Alnot M.-O., Brice A., Arnheim N. (1999) French Machado-Joseph Disease patients do not exhibit gametic segregation distortion: a sperm typing analysis Hum Mol Genet 8:1779-1784

  14. McPeek, M. S., Strahs, A. (1999) Assessment of linkage disequilibrium by the decay of haplotype sharing, with application to fine-scale genetic mapping Am J Hum Genet 65:858-875 Errata and typos

  15. McPeek M. S. (1999) SPERMSEG: analysis of segregation distortion in single sperm data Am J Hum Genet 65:1195-1197

  16. Girardet A., McPeek M. S., Leeflang E. P., Munier F., Arnheim N., Claustres M., Pellestor F. (2000) Meiotic segregation analysis of RB1 alleles in retinoblastoma pedigrees by use of single-sperm typing Am J Hum Genet 66:167-175

  17. Abney, M., McPeek, M. S., Ober C. (2000) Estimation of variance components of quantitative traits in inbred populations Am J Hum Genet 66:629-650

  18. McPeek, M. S., Sun L. (2000) Statistical tests for detection of misspecified relationships by use of genome-screen data Am J Hum Genet 66:1076-1094 Errata and typos

  19. McPeek M. S. (2000) From mouse to human: fine mapping of quantitative trait loci in a model organism PNAS 97:12389-12390

  20. Abney M., McPeek M. S., Ober C. (2001) Broad and narrow heritabilities of quantitative traits in a founder population Am J Hum Genet 68:1302-1307

  21. Ober C., Abney M., McPeek M. S. (2001) The genetic dissection of complex traits in a founder population Am J Hum Genet 69:1068-1079

  22. Sun L., Abney M., McPeek M. S. (2001) Detection of misspecified relationships in inbred and outbred pedigrees Genetic Epidemiology 21: S36-S41, Figure 1

  23. Newman D. L., Abney M., McPeek M. S., Ober C., Cox N. J. (2001) The importance of genealogy in determining genetic associations with complex traits Am J Hum Genet 69:1146-1148

  24. Sun L., Cox N. J., McPeek M. S. (2002) A statistical method for identification of polymorphisms that explain a linkage result American Journal of Human Genetics 70: 399-411

  25. Abney M., Ober C., McPeek M. S. (2002) Quantitative trait homozygosity and association mapping and empirical genome-wide significance in large complex pedigrees: fasting serum insulin level in the Hutterites American Journal of Human Genetics 70:920-934 Errata and typos

  26. McPeek M. S. (2002) Inference on pedigree structure from genome screen data Statistica Sinica 12:311-335

  27. Sun L., Wilder K., McPeek M. S. (2002) Enhanced pedigree error detection Human Heredity 54:99-110

  28. Newman D. L., Abney M., Dytch H., Parry R., McPeek M. S., Ober C. (2003) Major loci influencing serum triglyceride levels on 2q14 9p21 localized by homozygosity-by-descent mapping in a large Hutterite pedigree Human Molecular Genetics 12:137-144

  29. Strahs A., McPeek M. S. (2003) Multipoint fine-scale linkage disequilibrium mapping: importance of modeling background LD IMS Lecture Notes Monograph Series, Volume 40 Science and Statistics: A Festschrift for Terry Speed, Darlene R. Goldstein, ed., pp. 343-366

  30. Bourgain C., Hoffjan S., Nicolae R., Newman D., Steiner L., Walker K., Reynolds R., Ober C., McPeek M. S. (2003) Novel case-control test in a founder population identifies P-selectin as an atopy susceptibility locus American Journal of Human Genetics 73:612-626

    Typos in published version

  31. Zheng M., McPeek M. S. (2004) Parametric bootstrap for assessment of goodness of fit of models for block haplotype structure Springer Lecture Notes in Computer Science Series 2983, S. Istrail, M. S. Waterman, A. G. Clark, eds., pp. 113-123

  32. McPeek M. S., Wu X., Ober C. (2004) Best linear unbiased allele-frequency estimation in complex pedigrees Biometrics 60:359-367 Erratum

  33. Newman D. L., Hoffjan S., Bourgain C., Abney M., Nicolae R. I., Profits E. T., Grow M. A., Walker K., Steiner L., Parry R., Reynolds R., McPeek M. S., Cheng S., Ober C. (2004) Are common disease susceptibility alleles the same in outbred and founder populations? European Journal of Human Genetics 12:584-590

  34. Weiss L. A., Veenstra-VanderWeele J., Newman D. L., Kim S.-J., Dytch H., McPeek M. S., Cheng S., Ober C., Cook E. H. Jr., Abney M. (2004) Genome-wide association study identifies ITGB3 as a QTL for whole blood serotonin European Journal of Human Genetics 12:949-954

  35. Bourgain C., Abney M., Schneider D., Ober C., McPeek M. S. (2004) Testing for Hardy-Weinberg in samples with related individuals Genetics 168:2349-2361

  36. Zhang J., Schneider D., Ober C., McPeek M. S. (2005) Multilocus linkage disequilibrium mapping by the decay of haplotype sharing with samples of related individuals Genetic Epidemiology 29: 128-140

  37. Armstrong N. J., McPeek M. S., Speed T. P. (2006) Incorporating interference into linkage analysis for experimental crosses Biostatistics 7: 374-386

  38. Zheng M., McPeek M. S. (2007) Multipoint Linkage Disequilibrium Mapping with Haplotype Block Structure American Journal of Human Genetics 80: 112-125

  39. Tong L., Mets L., McPeek M. S (2007) Likelihood-Based Inference for Multi-Color Optical Mapping Statistical Applications in Genetics and Molecular Biology 6(1) article 5

  40. Pluzhnikov A., Nolan D. K., Tan Z., McPeek M. S., Ober C (2007) Correlation of Intergenerational Family Sizes Suggests a Genetic Component to Reproductive Fitness American Journal of Human Genetics 81: 165-169

  41. Thornton T., McPeek M. S. (2007) Case-Control Association Testing with Related Individuals: A More Powerful Quasi-Likelihood Score Test American Journal of Human Genetics 81: 321-337

  42. Wang H.-Y., Fu Y., McPeek M. S., Lu X., Nuzhdin S., Su A., Lu J., Wu M.-L., Wu C.-I. (2008) Complex genetic interactions underlying expression differences between Drosophila races --- Analysis of chromosome substitutions PNAS 105: 6362-6367

  43. Wang Z., McPeek M. S. (2009) An Incomplete-Data Quasi-Likelihood Approach to Haplotype-Based Genetic Association Studies on Related Individuals, (2009) Journal of the American Statistical Association 104: 1251-1260

  44. Wang Z., McPeek M. S. (2009) ATRIUM: Testing Untyped SNPs in Case-Control Association Studies with Related Individuals American Journal of Human Genetics 85: 667-678

  45. Zhang J., Niyogi P., McPeek M. S. (2009) Laplacian eigenfunctions learn population structure PLoS ONE 4(12) e7928

  46. Thornton T., McPeek M. S. (2010) ROADTRIPS: Case-control association testing with partially or completely unknown population and pedigree structure American Journal of Human Genetics 86: 172-184

  47. McPeek M. S. (2012) Genetic Recombination in Selected Works of Terry Speed, Sandrine Dudoit, ed., Springer-Verlag New York Publishers

  48. McPeek M. S. (2012) BLUP Genotype Imputation for Case-Control Association Testing with Related Individuals and Missing Data Journal of Computational Biology 19: 756-765

  49. Thornton T., Zhang Q., Cai X., Ober C., McPeek M. S. (2012) XM: Association Testing on the X-Chromosome in Case-Control Samples with Related Individuals Genetic Epidemiology 36: 438-450

  50. Jakobsdottir J., McPeek M. S. (2013) MASTOR: Mixed-Model Association Mapping of Quantitative Traits in Samples with Related Individuals American Journal of Human Genetics 92: 652-666

  51. Jiang D., McPeek M. S. (2014) Robust Rare Variant Association Testing for Quantitative Traits in Samples with Related Individuals Genetic Epidemiology 38: 10-20

  52. Jiang D., Mbatchou J., McPeek M. S. (2015) "Retrospective Association Analysis of Binary Traits: Overcoming Some Limitations of the Additive Polygenic Model" Human Heredity 80: 187-195

  53. Jiang D., Zhong S., McPeek M. S. (2016) Retrospective Binary-Trait Association Test Elucidates Genetic Architecture of Crohn's Disease American Journal of Human Genetics 98: 243-255

  54. Wang M., Jakobsdottir J., Smith A. V., McPeek M. S. (2016) G-STRATEGY: Optimal Selection of Individuals for Sequencing in Genetic Association Studies Genetic Epidemiology 40:446-460 | DOI: 10.1002/gepi.21982

  55. Zhong S., Jiang D., McPeek M. S. (2016) CERAMIC: Case-Control Association Testing in Samples with Related Individuals Based on Retrospective Mixed Model Analysis with Adjustment for Covariates PLoS Genetics 12(10):.e1006329. doi:10.1371/journal.pgen.1006329

  56. Wang M., Roux F., Bartoli C., Huard-Chauveau C., Meyer C., Lee H., Roby D., McPeek M.S., Bergelson J. (2018) Two-way mixed-effects methods for joint association mapping analysis using both host and pathogen genomes PNAS vol. 115 no. 24 E5440-E5449

  57. Wu X., McPeek M. S. (2018) L-GATOR: genetic association testing for a longitudinally-measured quantitative trait in samples with related individuals American Journal of Human Genetics 102: 547-591

  58. Conomos M.P., Reiner A.P., McPeek M.S., Thornton T.A. Genome-wide control of population structure and relatedness in genetic association studies via linear mixed models with orthogonally partitioned structure https://www.biorxiv.org/content/10.1101/409953v1

  59. Weine E., McPeek M. S., Abney M. Application of equal local levels to improve Q-Q plot testing bands with R package qqconf Journal of Statistical Software 106: 1-31 doi.org/10.18637/jss.v106.i10

  60. Mbatchou J., Abney M., McPeek M. S. BRASS: permutation methods for binary traits in genetic association studies with structured samples PLoS Genetics 19(11):e1011020 doi.org/10.1371/journal.pgen.1011020