Andrew Allen

Summary

Affiliation: Duke University Medical Center
Country: USA

Publications

  1. ncbi Effect of population stratification on the identification of significant single-nucleotide polymorphisms in genome-wide association studies
    Sara M Sarasua
    Department of Genetics and Biochemistry, Clemson University, 100 Jordan Hall, Clemson, South Carolina 29634 0318, USA
    BMC Proc 3:S13. 2009
  2. ncbi Application of a rank-based genetic association test to age-at-onset data from the Collaborative Study on the Genetics of Alcoholism study
    Yi Ju Li
    Center for Human Genetics, Duke University Medical Center, Durham, NC 27710, USA
    BMC Genet 6:S53. 2005
  3. ncbi A novel haplotype-sharing approach for genome-wide case-control association studies implicates the calpastatin gene in Parkinson's disease
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina 27710, USA
    Genet Epidemiol 33:657-67. 2009
  4. ncbi Association mapping via a class of haplotype-sharing statistics
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Hock Plaza, Suite 1102, 2424 Erwin Road, Durham, North Carolina 27705, USA
    BMC Proc 1:S123. 2007
  5. ncbi SNPs in CAST are associated with Parkinson disease: a confirmation study
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina, USA
    Am J Med Genet B Neuropsychiatr Genet 153:973-9. 2010
  6. ncbi Robust testing of haplotype/disease association
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, NC, USA
    BMC Genet 6:S69. 2005
  7. ncbi Genome-wide association analysis of rheumatoid arthritis data via haplotype sharing
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University, DUMC 3850, Durham, North Carolina 27710 USA
    BMC Proc 3:S30. 2009
  8. ncbi Inference on haplotype/disease association using parent-affected-child data: the projection conditional on parental haplotypes method
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina, USA
    Genet Epidemiol 31:211-23. 2007
  9. ncbi Informative missingness in genetic association studies: case-parent designs
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University Medical Center, Durham, NC, USA
    Am J Hum Genet 72:671-80. 2003
  10. ncbi Statistical models for haplotype sharing in case-parent trio data
    Andrew S Allen
    Department of Bioinformatics and Biostatistics, Duke University, North Carolina, USA
    Hum Hered 64:35-44. 2007

Research Grants

  1. Robust Methods for the Efficient Analysis and Integration of DNA Sequence Data
    Andrew S Allen; Fiscal Year: 2010
  2. Robust Methods for the Efficient Analysis and Integration of DNA Sequence Data
    Andrew S Allen; Fiscal Year: 2010

Collaborators

Detail Information

Publications24

  1. ncbi Effect of population stratification on the identification of significant single-nucleotide polymorphisms in genome-wide association studies
    Sara M Sarasua
    Department of Genetics and Biochemistry, Clemson University, 100 Jordan Hall, Clemson, South Carolina 29634 0318, USA
    BMC Proc 3:S13. 2009
    ..In particular, we find no evidence for association of TRAF1-C5 with rheumatoid arthritis...
  2. ncbi Application of a rank-based genetic association test to age-at-onset data from the Collaborative Study on the Genetics of Alcoholism study
    Yi Ju Li
    Center for Human Genetics, Duke University Medical Center, Durham, NC 27710, USA
    BMC Genet 6:S53. 2005
    ..These two regions may harbor genes that regulate age at onset of ALDX1 and ALDX2. Future fine mapping of these two regions with densely spaced markers is warranted...
  3. ncbi A novel haplotype-sharing approach for genome-wide case-control association studies implicates the calpastatin gene in Parkinson's disease
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina 27710, USA
    Genet Epidemiol 33:657-67. 2009
    ..Further, a missing-data artifact that causes a spurious single-SNP association on chromosome 9 does not impact our test...
  4. ncbi Association mapping via a class of haplotype-sharing statistics
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Hock Plaza, Suite 1102, 2424 Erwin Road, Durham, North Carolina 27705, USA
    BMC Proc 1:S123. 2007
    ..We find that these haplotype-based statistics result in greater power and better risk locus localization than the single locus single-nucleotide polymorphism analysis...
  5. ncbi SNPs in CAST are associated with Parkinson disease: a confirmation study
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina, USA
    Am J Med Genet B Neuropsychiatr Genet 153:973-9. 2010
    ..0167) between PD and SNP rs1559085 in CAST. These findings confirm CAST/PD associations in a second, independent, dataset and suggest that CAST be prioritized for further investigation...
  6. ncbi Robust testing of haplotype/disease association
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, NC, USA
    BMC Genet 6:S69. 2005
    ..Here we evaluate this approach by applying it to the Genetic Analysis Workshop 14 simulated data...
  7. ncbi Genome-wide association analysis of rheumatoid arthritis data via haplotype sharing
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University, DUMC 3850, Durham, North Carolina 27710 USA
    BMC Proc 3:S30. 2009
    ..3. These regions contain genes with interesting potential connections with rheumatoid arthritis and are not identified using single single-nucleotide polymorphism methods...
  8. ncbi Inference on haplotype/disease association using parent-affected-child data: the projection conditional on parental haplotypes method
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina, USA
    Genet Epidemiol 31:211-23. 2007
    ..Our approach generalizes previous results of Allen et al. ([2005] Biometrika 92:559-571), allowing for missing genotype data and haplotype x environment interactions. Additional computational simplifications are also discussed...
  9. ncbi Informative missingness in genetic association studies: case-parent designs
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University Medical Center, Durham, NC, USA
    Am J Hum Genet 72:671-80. 2003
    ....
  10. ncbi Statistical models for haplotype sharing in case-parent trio data
    Andrew S Allen
    Department of Bioinformatics and Biostatistics, Duke University, North Carolina, USA
    Hum Hered 64:35-44. 2007
    ..Further, permutation testing may be inappropriate in the presence of phase ambiguity and population stratification...
  11. ncbi Relationship of genetic variability and depressive symptoms to adverse events after coronary artery bypass graft surgery
    Barbara Phillips-Bute
    Department of Anesthesiology, Duke University Medical Center, Durham, NC 27710, USA
    Psychosom Med 70:953-9. 2008
    ..To assess genetic variability in two serotonin-related gene polymorphisms (MAOA-uVNTR and 5HTTLPR) and their relationships to depression and adverse cardiac events in a sample of patients undergoing coronary artery bypass surgery...
  12. ncbi Adjusting for covariates on a slippery slope: linkage analysis of change over time
    Evadnie Rampersaud
    Section of Medical Genetics, Department of Medicine, Center for Human Genetics, Duke University Medical Center, Durham, North Carolina, USA
    BMC Genet 4:S50. 2003
    ....
  13. ncbi Reduction of myocardial ischemic injury following coronary intervention (the MC-1 to Eliminate Necrosis and Damage trial)
    David E Kandzari
    Duke Clinical Research Institute, Durham, NC 27715, USA
    Am J Cardiol 92:660-4. 2003
    ..These results support the evaluation of MC-1 in pivotal trials of patients at risk for developing myocardial ischemia, infarction, or reperfusion injury...
  14. ncbi Determinants of exhaled nitric oxide levels in healthy, nonsmoking African American adults
    Marc C Levesque
    Department of Medicine, Division of Rheumatology and Immunology, Duke University Medical Center, Durham, NC 27710, USA
    J Allergy Clin Immunol 121:396-402.e3. 2008
    ..More needs to be known about the factors that regulate FeNO. There is a need for FeNO reference values for African Americans...
  15. ncbi Robust estimation and testing of haplotype effects in case-control studies
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina 27710, USA
    Genet Epidemiol 32:29-40. 2008
    ..We establish key relationships between estimators and study their empirical performance via simulation...
  16. ncbi Joint models for toxicology studies with dose-dependent number of implantations
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University Medical Center, Durham, NC 27715, USA
    Risk Anal 22:1165-73. 2002
    ..In a simulation study, our approach has smaller bias and variance than the multiple imputation procedure of Dunson...
  17. ncbi Genetic association studies in cardiology
    Mark P Donahue
    Duke University Medical Center and the Duke Clinical Research Institute, Durham, NC 27710, USA
    Am Heart J 149:964-70. 2005
    ..We then focus on the distinction between association and causation and conclude with perspectives on how this field of study may move forward in a productive manner...
  18. ncbi Bootstrap calibration of TRANSMIT for informative missingness of parental genotype data
    Andrew S Allen
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, Duke University, Durham, North Carolina, USA
    BMC Genet 4:S39. 2003
    ..We illustrate this approach by applying it to data on hypertensive probands and their parents who participated in the Framingham Heart Study...
  19. ncbi Characteristics of treated hypertension in incident hemodialysis and peritoneal dialysis patients
    Todd F Griffith
    Duke Institute of Renal Outcomes Research and Health Policy, Department of Medicine, Duke University Medical Center, Durham, NC, USA
    Am J Kidney Dis 42:1260-9. 2003
    ..This study describes the treatment of hypertension and assesses the association between mortality and class of antihypertensive medication among a cohort of dialysis patients...
  20. ncbi Power calculations for large multi-arm placebo-controlled studies of dichotomous outcomes
    Vic Hasselblad
    Department of Biostatistics and Bioinformatics and Duke Clinical Research Institute, PO Box 17969, Duke University Medical Center, Durham, NC 27715, U S A
    Stat Med 22:1943-54. 2003
    ..These results remained nearly constant over a wide range of sample sizes, average event rates and average effect sizes...
  21. ncbi Aging-related atherosclerosis is exacerbated by arterial expression of tumor necrosis factor receptor-1: evidence from mouse models and human association studies
    Lisheng Zhang
    Department of Medicine Cardiology, Duke University Medical Center, Durham, NC, USA
    Hum Mol Genet 19:2754-66. 2010
    ..We conclude that TNFR1 polymorphisms associate with aging-related CAD in humans, and TNFR1 contributes to aging-dependent atherosclerosis in mice...
  22. ncbi Genetic association tests based on ranks (GATOR) for quantitative traits with and without censoring
    Andrew S Allen
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina 27710, USA
    Genet Epidemiol 30:248-58. 2006
    ..The power and efficacy of the approach is illustrated through a series of simulation experiments in which the approach is compared to existing methods...
  23. ncbi Testing gene-treatment interactions in pharmacogenetic studies
    Min He
    Department of Biostatistics and Bioinformatics, Duke University, Durham, North Carolina, USA
    J Biopharm Stat 20:301-14. 2010
    ..We present methods for both autosomal and X-linked markers and show how the methods can be easily implemented using standard statistical software...
  24. ncbi Long-term survival estimates for imatinib versus interferon-alpha plus low-dose cytarabine for patients with newly diagnosed chronic-phase chronic myeloid leukemia
    Kevin J Anstrom
    Center for Clinical and Genetic Economics, Duke Clinical Research Institute, Duke University Medical Center, Durham, North Carolina, USA
    Cancer 101:2584-92. 2004
    ..CONCLUSIONS: Assuming the relation between CCyR and survival with interferon-alpha holds for imatinib, higher CCyR rates with imatinib therapy will result in an estimated 6.23 life-years gained compared with treatment with IFN+LDAC...

Research Grants3

  1. Robust Methods for the Efficient Analysis and Integration of DNA Sequence Data
    Andrew S Allen; Fiscal Year: 2010
    ....
  2. Robust Methods for the Efficient Analysis and Integration of DNA Sequence Data
    Andrew S Allen; Fiscal Year: 2010
    ..abstract_text> ..