Kathryn Roeder

Summary

Affiliation: Carnegie Mellon University
Country: USA

Publications

  1. pmc Integration of association statistics over genomic regions using Bayesian adaptive regression splines
    Xiaohua Zhang
    Department of Statistics, Carnegie Mellon University, Pittsburg, PA 15213, USA
    Hum Genomics 1:20-9. 2003
  2. pmc Ulcerative colitis-risk loci on chromosomes 1p36 and 12q15 found by genome-wide association study
    Mark S Silverberg
    Mount Sinai Hospital Inflammatory Bowel Disease Group, University of Toronto, 600 University Avenue, Toronto, ON M5G1X5, Canada
    Nat Genet 41:216-20. 2009
  3. ncbi request reprint Association studies for quantitative traits in structured populations
    Silviu Alin Bacanu
    Department of Psychiatry, University of Pittsburgh School of Medicine, 3811 O Hara Street, Pittsburgh, PA 15213, USA
    Genet Epidemiol 22:78-93. 2002
  4. pmc Searching for disease susceptibility variants in structured populations
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213 3890, USA
    Genomics 93:1-4. 2009
  5. ncbi request reprint Improving power in genome-wide association studies: weights tip the scale
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Genet Epidemiol 31:741-7. 2007
  6. pmc Using linkage genome scans to improve power of association in genome scans
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213 3890, USA
    Am J Hum Genet 78:243-52. 2006
  7. ncbi request reprint Analysis of single-locus tests to detect gene/disease associations
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 28:207-19. 2005
  8. ncbi request reprint Characterization of multilocus linkage disequilibrium
    Alessandro Rinaldo
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 28:193-206. 2005
  9. pmc Screen and clean: a tool for identifying interactions in genome-wide association studies
    Jing Wu
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 34:275-85. 2010
  10. pmc Vitamin D insufficiency and severe asthma exacerbations in Puerto Rican children
    John M Brehm
    Division of Pediatric Pulmonary Medicine, Allergy and Immunology, Department of Pediatrics, Children s Hospital of Pittsburgh of UPMC, 4401 Penn Avenue, Pittsburgh, PA 15224, USA
    Am J Respir Crit Care Med 186:140-6. 2012

Detail Information

Publications34

  1. pmc Integration of association statistics over genomic regions using Bayesian adaptive regression splines
    Xiaohua Zhang
    Department of Statistics, Carnegie Mellon University, Pittsburg, PA 15213, USA
    Hum Genomics 1:20-9. 2003
    ....
  2. pmc Ulcerative colitis-risk loci on chromosomes 1p36 and 12q15 found by genome-wide association study
    Mark S Silverberg
    Mount Sinai Hospital Inflammatory Bowel Disease Group, University of Toronto, 600 University Avenue, Toronto, ON M5G1X5, Canada
    Nat Genet 41:216-20. 2009
    ..0 x 10(-16), combined OR = 0.66) and at the IL23R locus on chromosome 1p31 (rs11209026, combined P = 1.3 x 10(-8), combined OR = 0.56; rs10889677, combined P = 1.3 x 10(-8), combined OR = 1.29)...
  3. ncbi request reprint Association studies for quantitative traits in structured populations
    Silviu Alin Bacanu
    Department of Psychiatry, University of Pittsburgh School of Medicine, 3811 O Hara Street, Pittsburgh, PA 15213, USA
    Genet Epidemiol 22:78-93. 2002
    ..The latter suggests greater power can be achieved by specifying more complex genetic models, but this observation only follows when such models are largely correct and specified a priori...
  4. pmc Searching for disease susceptibility variants in structured populations
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213 3890, USA
    Genomics 93:1-4. 2009
    ..We review available methods for modeling genetic ancestry based on the information gleaned from the SNP array. Methods for selecting control samples with genetic ancestry similar to the case samples are described...
  5. ncbi request reprint Improving power in genome-wide association studies: weights tip the scale
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Genet Epidemiol 31:741-7. 2007
    ..If no groups show apparent signals, then the weights will be approximately equal. The only restriction on the procedure is that the number of groups be small, relative to the total number of tests performed...
  6. pmc Using linkage genome scans to improve power of association in genome scans
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213 3890, USA
    Am J Hum Genet 78:243-52. 2006
    ..This inquiry reveals that, among genetic models that are seemingly equal in genetic information, some are much more promising than others for this mode of analysis...
  7. ncbi request reprint Analysis of single-locus tests to detect gene/disease associations
    Kathryn Roeder
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 28:207-19. 2005
    ..Finally, when a SNP selection procedure that targets a minimal number of SNPs per gene is applied, the average performances of T(P) and T(R) are indistinguishable...
  8. ncbi request reprint Characterization of multilocus linkage disequilibrium
    Alessandro Rinaldo
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 28:193-206. 2005
    ..We also propose a new, efficient method to select SNPs for association analysis, namely tag SNPs. These methods compare favorably to similar blocking and tagging methods using simulations...
  9. pmc Screen and clean: a tool for identifying interactions in genome-wide association studies
    Jing Wu
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 34:275-85. 2010
    ..When the method is applied to data obtained from the Wellcome Trust Case Control Consortium study of Type 1 Diabetes it uncovers evidence supporting interaction within the HLA class II region as well as within Chromosome 12q24...
  10. pmc Vitamin D insufficiency and severe asthma exacerbations in Puerto Rican children
    John M Brehm
    Division of Pediatric Pulmonary Medicine, Allergy and Immunology, Department of Pediatrics, Children s Hospital of Pittsburgh of UPMC, 4401 Penn Avenue, Pittsburgh, PA 15224, USA
    Am J Respir Crit Care Med 186:140-6. 2012
    ..Little is known about vitamin D and asthma in Puerto Ricans...
  11. ncbi request reprint Pleiotropy and principal components of heritability combine to increase power for association analysis
    Lambertus Klei
    Department of Psychiatry, University of Pittsburgh, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 32:9-19. 2008
    ..This cross-validation approach maintains the type I error control and yet utilizes the data efficiently, resulting in a powerful test for association...
  12. doi request reprint Discovering genetic ancestry using spectral graph theory
    Ann B Lee
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 34:51-9. 2010
    ..Often the results from Spectral-GEM are straightforward to interpret and therefore useful in association analysis. We illustrate the new algorithm with an analysis of the POPRES data [Nelson et al., 2008]...
  13. pmc Copy number variants for schizophrenia and related psychotic disorders in Oceanic Palau: risk and transmission in extended pedigrees
    Nadine Melhem
    Department of Psychiatry, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15213, USA
    Biol Psychiatry 70:1115-21. 2011
    ....
  14. pmc Candidate gene analysis of femoral neck trabecular and cortical volumetric bone mineral density in older men
    Laura M Yerges
    Epidemiology, University of Pittsburgh, Pittsburgh, PA 15261, USA
    J Bone Miner Res 25:330-8. 2010
    ..These findings identify novel genetic variants for cortical and trabecular vBMD and raise the possibility that some genetic loci may be unique for each bone compartment...
  15. pmc Clustering and alignment of polymorphic sequences for HLA-DRB1 genotyping
    Steven Ringquist
    Department of Pediatrics, Division of Immunogenetics, Children s Hospital of Pittsburgh of UPMC, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, United States of America
    PLoS ONE 8:e59835. 2013
    ..1%) alleles...
  16. pmc On the use of general control samples for genome-wide association studies: genetic matching highlights causal variants
    Diana Luca
    Department of Statistics, Carnegie Mellon University Pittsburgh, PA 15213, USA
    Am J Hum Genet 82:453-63. 2008
    ..We perform a GWA by matching Americans with type 1 diabetes (T1D) to controls from Germany. Despite the complex study design, these analyses identify numerous loci known to confer risk for T1D...
  17. pmc On the identification of disease mutations by the analysis of haplotype similarity and goodness of fit
    Jung Ying Tzeng
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Am J Hum Genet 72:891-902. 2003
    ..We show that both approaches can be powerful, but under quite different conditions. Moreover, we show that the power of both approaches can be enhanced by clustering rare haplotypes from the distributions before performing a test...
  18. ncbi request reprint Mixture models for linkage analysis of affected sibling pairs and covariates
    Bernie Devlin
    Department of Psychiatry, University of Pittsburgh School of Medicine, 3811 O Hara Street, Pittsburgh, PA 15213, USA
    Genet Epidemiol 22:52-65. 2002
    ....
  19. pmc Whole exome sequencing reveals minimal differences between cell line and whole blood derived DNA
    Chad M Schafer
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Genomics 102:270-7. 2013
    ..These results validate the use of DNA from LCLs of low passage number for exome sequencing. ..
  20. ncbi request reprint Analysis of multilocus models of association
    B Devlin
    Department of Psychiatry, University of Pittsburgh, Pennsylvania 15213, USA
    Genet Epidemiol 25:36-47. 2003
    ..Naturally, as for any method seeking to explore complex genetic models, the power of the methods is limited by sample size and model complexity...
  21. ncbi request reprint Genetic liability to schizophrenia in Oceanic Palau: a search in the affected and maternal generation
    Bernie Devlin
    Department of Psychiatry, University of Pittsburgh School of Medicine, 3811 O Hara Street, Pittsburgh, PA 15213, USA
    Hum Genet 121:675-84. 2007
    ..Regions in which at least two adjacent markers produced substantial association statistics include 2p12-11.2, 2q24.1-32.1, 6q12-14.1, 10q23.2-24.21, 12q23.2-24.21 and 17q23.2-23.3...
  22. ncbi request reprint Evolutionary-based association analysis using haplotype data
    Howard Seltman
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Genet Epidemiol 25:48-58. 2003
    ..The exploratory analyses, such as error checking, estimation of haplotype frequencies, and tools for building cladograms, should facilitate the implementation of cladistic-based association analysis with haplotypes...
  23. doi request reprint Using ancestry matching to combine family-based and unrelated samples for genome-wide association studies
    Andrew Crossett
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Stat Med 29:2932-45. 2010
    ..Once samples are well-matched, mCLR yields comparable power to competing methods while ensuring excellent control over Type I error...
  24. pmc Integrated model of de novo and inherited genetic variants yields greater power to identify risk genes
    Xin He
    Lane Center of Computational Biology, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
    PLoS Genet 9:e1003671. 2013
    ..Indeed, application of TADA to WES data from subjects with ASD and their families, as well as from a study of ASD subjects and controls, revealed several novel and promising ASD candidate genes with strong statistical support. ..
  25. pmc Common genetic variants, acting additively, are a major source of risk for autism
    Lambertus Klei
    Department of Psychiatry, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA
    Mol Autism 3:9. 2012
    ..abstract:..
  26. pmc Common genetic variants in the CLDN2 and PRSS1-PRSS2 loci alter risk for alcohol-related and sporadic pancreatitis
    David C Whitcomb
    Division of Gastroenterology, Hepatology and Nutrition, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
    Nat Genet 44:1349-54. 2012
    ..These results could partially explain the high frequency of alcohol-related pancreatitis in men (male hemizygote frequency is 0.26, whereas female homozygote frequency is 0.07)...
  27. pmc High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men
    Laura M Yerges
    Department of Epidemiology, University of Pittsburgh, Pittsburgh, Pennsylvania 15261, USA
    J Bone Miner Res 24:2039-49. 2009
    ....
  28. pmc Do common variants play a role in risk for autism? Evidence and theoretical musings
    Bernie Devlin
    Department of Psychiatry, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA
    Brain Res 1380:78-84. 2011
    ..We lay out this theory, calculate plausible distributions, and discuss the results in the context of results from GWA studies for schizophrenia...
  29. pmc De novo mutations revealed by whole-exome sequencing are strongly associated with autism
    Stephan J Sanders
    Program on Neurogenetics, Child Study Center, Department of Psychiatry, Yale University School of Medicine, 230 South Frontage Road, New Haven, Connecticut 06520, USA
    Nature 485:237-41. 2012
    ....
  30. pmc Analysis of rare, exonic variation amongst subjects with autism spectrum disorders and population controls
    Li Liu
    Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
    PLoS Genet 9:e1003443. 2013
    ..Our results suggest that standard gene-based tests will require much larger samples of cases and controls before being effective for gene discovery, even for a disorder like ASD...
  31. pmc African ancestry and lung function in Puerto Rican children
    John M Brehm
    Division of Pediatric Pulmonary Medicine, Allergy and Immunology, Department of Pediatrics, Children s Hospital of Pittsburgh of UPMC, University of Pittsburgh School of Medicine, Pittsburgh, PA 15224, USA
    J Allergy Clin Immunol 129:1484-90.e6. 2012
    ..Puerto Rican and African American subjects share a significant proportion of African ancestry. Recent findings suggest that African ancestry influences lung function in African American adults...
  32. pmc TOMM40 poly-T repeat lengths, age of onset and psychosis risk in Alzheimer disease
    Su Hee Chu
    Department of Statistics, Carnegie Mellon University, Pittsburgh, PA, USA
    Neurobiol Aging 32:2328.e1-9. 2011
    ..Our findings do not support the association of poly-T repeat length with age of onset in LOAD. The clinical implications of this repeat length polymorphism remain to be elucidated...
  33. ncbi request reprint SNP-based analysis of genetic substructure in the German population
    Michael Steffens
    Institute of Medical Biometry, Informatics and Epidemiology, Rheinische Friedrich Wilhelms University, Bonn, Germany
    Hum Hered 62:20-9. 2006
    ..Two of the three samples, POPGEN (n = 720) and SHIP (n = 709), are from north and north-east Germany, respectively, and one sample, KORA (n = 730), is from southern Germany...
  34. ncbi request reprint Genomic Control to the extreme
    B Devlin
    Nat Genet 36:1129-30; author reply 1131. 2004